Script file	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/chipseq.bds
Program ID	chipseq.bds.20170414_160421_126
Start time	2017-04-14 16:04:21
Run time	00:34:35.690
Tasks executed	13
Tasks failed	0
Tasks failed names
Arguments*	[-title, ZBTB26_MACS2, -nth, 5, -species, hg38_ENCODE, -url_base, http://mitra.stanford.edu/kundaje/leepc12/imk_chipseq/ZBTB26_MACS2/out, -filt_bam1, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep1/ENCFF066ZSK.bam, -filt_bam2, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep2/ENCFF241VRG.bam, -ctl_tag, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz, -pe, -histone, $]
System*	sge
Cpus*	-1
Exit value	0

Thread ID	Parent	Tasks
thread_Root	None	chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_pooled_rep.line_155.id_10 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_ppr1.line_155.id_11 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_ppr2.line_155.id_12 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_rep1.line_155.id_13 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_rep1_pr1.line_155.id_14 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_rep1_pr2.line_155.id_15 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_rep2.line_155.id_16 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_rep2_pr1.line_155.id_17 chipseq.bds.20170414_160421_126/task.callpeak_macs2.macs2_g_b_rep2_pr2.line_155.id_18 chipseq.bds.20170414_160421_126/task.callpeak_naive_overlap.naive_overlap.line_143.id_19 chipseq.bds.20170414_160421_126/task.callpeak_naive_overlap.naive_overlap.line_143.id_20 chipseq.bds.20170414_160421_126/task.report.peak2hammock.line_361.id_23 chipseq.bds.20170414_160421_126/task.graphviz.report.line_97.id_24
thread_43	thread_Root
thread_41	thread_Root
thread_42	thread_Root

Task details

Task

Execution

Time

Dependencies

Task program, Errors, StdOut / StdErr

Num	1
ID	task.callpeak_macs2.macs2_g_b_pooled_rep.line_155.id_10
Name	macs2 g/b pooled_rep
Thread	thread_Root
PID	47058

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:04:33
End	2017-04-14 16:26:02
Elapsed	00:21:29
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 238 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
734 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:04:56: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 238 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:04:56: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:04:56: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:04:58:  1000000 
INFO  @ Fri, 14 Apr 2017 16:04:59:  2000000 
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INFO  @ Fri, 14 Apr 2017 16:05:08:  8000000 
INFO  @ Fri, 14 Apr 2017 16:05:10:  9000000 
INFO  @ Fri, 14 Apr 2017 16:05:12:  10000000 
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INFO  @ Fri, 14 Apr 2017 16:07:55:  110000000 
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INFO  @ Fri, 14 Apr 2017 16:08:10:  120000000 
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INFO  @ Fri, 14 Apr 2017 16:08:25:  130000000 
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INFO  @ Fri, 14 Apr 2017 16:08:41:  140000000 
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INFO  @ Fri, 14 Apr 2017 16:08:53:  148000000 
INFO  @ Fri, 14 Apr 2017 16:08:55:  149000000 
INFO  @ Fri, 14 Apr 2017 16:08:57:  150000000 
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INFO  @ Fri, 14 Apr 2017 16:09:09:  158000000 
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INFO  @ Fri, 14 Apr 2017 16:09:12:  160000000 
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INFO  @ Fri, 14 Apr 2017 16:09:27:  170000000 
INFO  @ Fri, 14 Apr 2017 16:09:29:  171000000 
INFO  @ Fri, 14 Apr 2017 16:09:30:  172000000 
INFO  @ Fri, 14 Apr 2017 16:09:32:  173000000 
INFO  @ Fri, 14 Apr 2017 16:09:34:  174000000 
INFO  @ Fri, 14 Apr 2017 16:09:35:  175000000 
INFO  @ Fri, 14 Apr 2017 16:09:37:  176000000 
INFO  @ Fri, 14 Apr 2017 16:09:38:  177000000 
INFO  @ Fri, 14 Apr 2017 16:09:40:  178000000 
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INFO  @ Fri, 14 Apr 2017 16:09:43:  180000000 
INFO  @ Fri, 14 Apr 2017 16:09:45:  181000000 
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INFO  @ Fri, 14 Apr 2017 16:09:48:  183000000 
INFO  @ Fri, 14 Apr 2017 16:09:49:  184000000 
INFO  @ Fri, 14 Apr 2017 16:09:51:  185000000 
INFO  @ Fri, 14 Apr 2017 16:09:53:  186000000 
INFO  @ Fri, 14 Apr 2017 16:09:54:  187000000 
INFO  @ Fri, 14 Apr 2017 16:09:56:  188000000 
INFO  @ Fri, 14 Apr 2017 16:09:57:  189000000 
INFO  @ Fri, 14 Apr 2017 16:09:59:  190000000 
INFO  @ Fri, 14 Apr 2017 16:10:00:  191000000 
INFO  @ Fri, 14 Apr 2017 16:10:02:  192000000 
INFO  @ Fri, 14 Apr 2017 16:10:03:  193000000 
INFO  @ Fri, 14 Apr 2017 16:10:05:  194000000 
INFO  @ Fri, 14 Apr 2017 16:10:06:  195000000 
INFO  @ Fri, 14 Apr 2017 16:10:08:  196000000 
INFO  @ Fri, 14 Apr 2017 16:10:09:  197000000 
INFO  @ Fri, 14 Apr 2017 16:10:11:  198000000 
INFO  @ Fri, 14 Apr 2017 16:10:12:  199000000 
INFO  @ Fri, 14 Apr 2017 16:10:14:  200000000 
INFO  @ Fri, 14 Apr 2017 16:10:15:  201000000 
INFO  @ Fri, 14 Apr 2017 16:10:17:  202000000 
INFO  @ Fri, 14 Apr 2017 16:10:18:  203000000 
INFO  @ Fri, 14 Apr 2017 16:10:20:  204000000 
INFO  @ Fri, 14 Apr 2017 16:10:22:  205000000 
INFO  @ Fri, 14 Apr 2017 16:10:23:  206000000 
INFO  @ Fri, 14 Apr 2017 16:10:25:  207000000 
INFO  @ Fri, 14 Apr 2017 16:10:26:  208000000 
INFO  @ Fri, 14 Apr 2017 16:10:28:  209000000 
INFO  @ Fri, 14 Apr 2017 16:10:29:  210000000 
INFO  @ Fri, 14 Apr 2017 16:10:31:  211000000 
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INFO  @ Fri, 14 Apr 2017 16:10:34:  213000000 
INFO  @ Fri, 14 Apr 2017 16:10:36:  214000000 
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INFO  @ Fri, 14 Apr 2017 16:10:39:  216000000 
INFO  @ Fri, 14 Apr 2017 16:10:40:  217000000 
INFO  @ Fri, 14 Apr 2017 16:10:42:  218000000 
INFO  @ Fri, 14 Apr 2017 16:10:44:  219000000 
INFO  @ Fri, 14 Apr 2017 16:11:02: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:11:04:  1000000 
INFO  @ Fri, 14 Apr 2017 16:11:06:  2000000 
INFO  @ Fri, 14 Apr 2017 16:11:07:  3000000 
INFO  @ Fri, 14 Apr 2017 16:11:09:  4000000 
INFO  @ Fri, 14 Apr 2017 16:11:11:  5000000 
INFO  @ Fri, 14 Apr 2017 16:11:12:  6000000 
INFO  @ Fri, 14 Apr 2017 16:11:14:  7000000 
INFO  @ Fri, 14 Apr 2017 16:11:15:  8000000 
INFO  @ Fri, 14 Apr 2017 16:11:17:  9000000 
INFO  @ Fri, 14 Apr 2017 16:11:18:  10000000 
INFO  @ Fri, 14 Apr 2017 16:11:20:  11000000 
INFO  @ Fri, 14 Apr 2017 16:11:22:  12000000 
INFO  @ Fri, 14 Apr 2017 16:11:23:  13000000 
INFO  @ Fri, 14 Apr 2017 16:11:25:  14000000 
INFO  @ Fri, 14 Apr 2017 16:11:26:  15000000 
INFO  @ Fri, 14 Apr 2017 16:11:28:  16000000 
INFO  @ Fri, 14 Apr 2017 16:11:29:  17000000 
INFO  @ Fri, 14 Apr 2017 16:11:31:  18000000 
INFO  @ Fri, 14 Apr 2017 16:11:32:  19000000 
INFO  @ Fri, 14 Apr 2017 16:11:34:  20000000 
INFO  @ Fri, 14 Apr 2017 16:11:35:  21000000 
INFO  @ Fri, 14 Apr 2017 16:11:37:  22000000 
INFO  @ Fri, 14 Apr 2017 16:11:39:  23000000 
INFO  @ Fri, 14 Apr 2017 16:11:40:  24000000 
INFO  @ Fri, 14 Apr 2017 16:11:42:  25000000 
INFO  @ Fri, 14 Apr 2017 16:11:43:  26000000 
INFO  @ Fri, 14 Apr 2017 16:11:45:  27000000 
INFO  @ Fri, 14 Apr 2017 16:11:46:  28000000 
INFO  @ Fri, 14 Apr 2017 16:11:48:  29000000 
INFO  @ Fri, 14 Apr 2017 16:11:50:  30000000 
INFO  @ Fri, 14 Apr 2017 16:11:52:  31000000 
INFO  @ Fri, 14 Apr 2017 16:11:54:  32000000 
INFO  @ Fri, 14 Apr 2017 16:11:55:  33000000 
INFO  @ Fri, 14 Apr 2017 16:11:57:  34000000 
INFO  @ Fri, 14 Apr 2017 16:11:59:  35000000 
INFO  @ Fri, 14 Apr 2017 16:12:00:  36000000 
INFO  @ Fri, 14 Apr 2017 16:12:02:  37000000 
INFO  @ Fri, 14 Apr 2017 16:12:03:  38000000 
INFO  @ Fri, 14 Apr 2017 16:12:05:  39000000 
INFO  @ Fri, 14 Apr 2017 16:12:06:  40000000 
INFO  @ Fri, 14 Apr 2017 16:12:08:  41000000 
INFO  @ Fri, 14 Apr 2017 16:12:09:  42000000 
INFO  @ Fri, 14 Apr 2017 16:12:11:  43000000 
INFO  @ Fri, 14 Apr 2017 16:12:12:  44000000 
INFO  @ Fri, 14 Apr 2017 16:12:14:  45000000 
INFO  @ Fri, 14 Apr 2017 16:12:15:  46000000 
INFO  @ Fri, 14 Apr 2017 16:12:17:  47000000 
INFO  @ Fri, 14 Apr 2017 16:12:19:  48000000 
INFO  @ Fri, 14 Apr 2017 16:12:21:  49000000 
INFO  @ Fri, 14 Apr 2017 16:12:22:  50000000 
INFO  @ Fri, 14 Apr 2017 16:12:24:  51000000 
INFO  @ Fri, 14 Apr 2017 16:12:25:  52000000 
INFO  @ Fri, 14 Apr 2017 16:12:27:  53000000 
INFO  @ Fri, 14 Apr 2017 16:12:29:  54000000 
INFO  @ Fri, 14 Apr 2017 16:12:30:  55000000 
INFO  @ Fri, 14 Apr 2017 16:12:32:  56000000 
INFO  @ Fri, 14 Apr 2017 16:12:34:  57000000 
INFO  @ Fri, 14 Apr 2017 16:12:35:  58000000 
INFO  @ Fri, 14 Apr 2017 16:12:37:  59000000 
INFO  @ Fri, 14 Apr 2017 16:12:38:  60000000 
INFO  @ Fri, 14 Apr 2017 16:12:40:  61000000 
INFO  @ Fri, 14 Apr 2017 16:12:41:  62000000 
INFO  @ Fri, 14 Apr 2017 16:12:43:  63000000 
INFO  @ Fri, 14 Apr 2017 16:12:44:  64000000 
INFO  @ Fri, 14 Apr 2017 16:12:46:  65000000 
INFO  @ Fri, 14 Apr 2017 16:12:48:  66000000 
INFO  @ Fri, 14 Apr 2017 16:12:49:  67000000 
INFO  @ Fri, 14 Apr 2017 16:12:51:  68000000 
INFO  @ Fri, 14 Apr 2017 16:12:53:  69000000 
INFO  @ Fri, 14 Apr 2017 16:12:54:  70000000 
INFO  @ Fri, 14 Apr 2017 16:12:56:  71000000 
INFO  @ Fri, 14 Apr 2017 16:12:57:  72000000 
INFO  @ Fri, 14 Apr 2017 16:12:58:  73000000 
INFO  @ Fri, 14 Apr 2017 16:13:00:  74000000 
INFO  @ Fri, 14 Apr 2017 16:13:02:  75000000 
INFO  @ Fri, 14 Apr 2017 16:13:04:  76000000 
INFO  @ Fri, 14 Apr 2017 16:13:05:  77000000 
INFO  @ Fri, 14 Apr 2017 16:13:07:  78000000 
INFO  @ Fri, 14 Apr 2017 16:13:09:  79000000 
INFO  @ Fri, 14 Apr 2017 16:13:10:  80000000 
INFO  @ Fri, 14 Apr 2017 16:13:12:  81000000 
INFO  @ Fri, 14 Apr 2017 16:13:14:  82000000 
INFO  @ Fri, 14 Apr 2017 16:13:15:  83000000 
INFO  @ Fri, 14 Apr 2017 16:13:17:  84000000 
INFO  @ Fri, 14 Apr 2017 16:13:18:  85000000 
INFO  @ Fri, 14 Apr 2017 16:13:20:  86000000 
INFO  @ Fri, 14 Apr 2017 16:13:22:  87000000 
INFO  @ Fri, 14 Apr 2017 16:13:23:  88000000 
INFO  @ Fri, 14 Apr 2017 16:13:25:  89000000 
INFO  @ Fri, 14 Apr 2017 16:13:26:  90000000 
INFO  @ Fri, 14 Apr 2017 16:13:28:  91000000 
INFO  @ Fri, 14 Apr 2017 16:13:29:  92000000 
INFO  @ Fri, 14 Apr 2017 16:13:31:  93000000 
INFO  @ Fri, 14 Apr 2017 16:13:32:  94000000 
INFO  @ Fri, 14 Apr 2017 16:13:34:  95000000 
INFO  @ Fri, 14 Apr 2017 16:13:35:  96000000 
INFO  @ Fri, 14 Apr 2017 16:13:37:  97000000 
INFO  @ Fri, 14 Apr 2017 16:13:38:  98000000 
INFO  @ Fri, 14 Apr 2017 16:13:40:  99000000 
INFO  @ Fri, 14 Apr 2017 16:13:49: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:13:49: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:13:49: #1  total tags in treatment: 219735318 
INFO  @ Fri, 14 Apr 2017 16:13:49: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:13:49: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:13:49: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:13:49: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:13:49: #2 Use 238 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:13:49: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:13:49: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:13:49: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:22:09: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:25:59: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:25:59: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:26:00: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:26:00: Done!

Num	2
ID	task.callpeak_macs2.macs2_g_b_ppr1.line_155.id_11
Name	macs2 g/b ppr1
Thread	thread_Root
PID	47059

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:04:36
End	2017-04-14 16:21:51
Elapsed	00:17:15
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 238 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
1384 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:05:05: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 238 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:05:07:  1000000 
INFO  @ Fri, 14 Apr 2017 16:05:08:  2000000 
INFO  @ Fri, 14 Apr 2017 16:05:10:  3000000 
INFO  @ Fri, 14 Apr 2017 16:05:12:  4000000 
INFO  @ Fri, 14 Apr 2017 16:05:13:  5000000 
INFO  @ Fri, 14 Apr 2017 16:05:15:  6000000 
INFO  @ Fri, 14 Apr 2017 16:05:17:  7000000 
INFO  @ Fri, 14 Apr 2017 16:05:18:  8000000 
INFO  @ Fri, 14 Apr 2017 16:05:20:  9000000 
INFO  @ Fri, 14 Apr 2017 16:05:22:  10000000 
INFO  @ Fri, 14 Apr 2017 16:05:24:  11000000 
INFO  @ Fri, 14 Apr 2017 16:05:25:  12000000 
INFO  @ Fri, 14 Apr 2017 16:05:27:  13000000 
INFO  @ Fri, 14 Apr 2017 16:05:28:  14000000 
INFO  @ Fri, 14 Apr 2017 16:05:30:  15000000 
INFO  @ Fri, 14 Apr 2017 16:05:32:  16000000 
INFO  @ Fri, 14 Apr 2017 16:05:33:  17000000 
INFO  @ Fri, 14 Apr 2017 16:05:35:  18000000 
INFO  @ Fri, 14 Apr 2017 16:05:36:  19000000 
INFO  @ Fri, 14 Apr 2017 16:05:38:  20000000 
INFO  @ Fri, 14 Apr 2017 16:05:40:  21000000 
INFO  @ Fri, 14 Apr 2017 16:05:41:  22000000 
INFO  @ Fri, 14 Apr 2017 16:05:43:  23000000 
INFO  @ Fri, 14 Apr 2017 16:05:45:  24000000 
INFO  @ Fri, 14 Apr 2017 16:05:46:  25000000 
INFO  @ Fri, 14 Apr 2017 16:05:48:  26000000 
INFO  @ Fri, 14 Apr 2017 16:05:50:  27000000 
INFO  @ Fri, 14 Apr 2017 16:05:52:  28000000 
INFO  @ Fri, 14 Apr 2017 16:05:53:  29000000 
INFO  @ Fri, 14 Apr 2017 16:05:55:  30000000 
INFO  @ Fri, 14 Apr 2017 16:05:57:  31000000 
INFO  @ Fri, 14 Apr 2017 16:05:58:  32000000 
INFO  @ Fri, 14 Apr 2017 16:06:00:  33000000 
INFO  @ Fri, 14 Apr 2017 16:06:02:  34000000 
INFO  @ Fri, 14 Apr 2017 16:06:03:  35000000 
INFO  @ Fri, 14 Apr 2017 16:06:05:  36000000 
INFO  @ Fri, 14 Apr 2017 16:06:06:  37000000 
INFO  @ Fri, 14 Apr 2017 16:06:08:  38000000 
INFO  @ Fri, 14 Apr 2017 16:06:10:  39000000 
INFO  @ Fri, 14 Apr 2017 16:06:12:  40000000 
INFO  @ Fri, 14 Apr 2017 16:06:13:  41000000 
INFO  @ Fri, 14 Apr 2017 16:06:15:  42000000 
INFO  @ Fri, 14 Apr 2017 16:06:17:  43000000 
INFO  @ Fri, 14 Apr 2017 16:06:18:  44000000 
INFO  @ Fri, 14 Apr 2017 16:06:20:  45000000 
INFO  @ Fri, 14 Apr 2017 16:06:22:  46000000 
INFO  @ Fri, 14 Apr 2017 16:06:23:  47000000 
INFO  @ Fri, 14 Apr 2017 16:06:25:  48000000 
INFO  @ Fri, 14 Apr 2017 16:06:27:  49000000 
INFO  @ Fri, 14 Apr 2017 16:06:29:  50000000 
INFO  @ Fri, 14 Apr 2017 16:06:30:  51000000 
INFO  @ Fri, 14 Apr 2017 16:06:32:  52000000 
INFO  @ Fri, 14 Apr 2017 16:06:34:  53000000 
INFO  @ Fri, 14 Apr 2017 16:06:35:  54000000 
INFO  @ Fri, 14 Apr 2017 16:06:37:  55000000 
INFO  @ Fri, 14 Apr 2017 16:06:38:  56000000 
INFO  @ Fri, 14 Apr 2017 16:06:40:  57000000 
INFO  @ Fri, 14 Apr 2017 16:06:42:  58000000 
INFO  @ Fri, 14 Apr 2017 16:06:43:  59000000 
INFO  @ Fri, 14 Apr 2017 16:06:45:  60000000 
INFO  @ Fri, 14 Apr 2017 16:06:46:  61000000 
INFO  @ Fri, 14 Apr 2017 16:06:48:  62000000 
INFO  @ Fri, 14 Apr 2017 16:06:50:  63000000 
INFO  @ Fri, 14 Apr 2017 16:06:51:  64000000 
INFO  @ Fri, 14 Apr 2017 16:06:53:  65000000 
INFO  @ Fri, 14 Apr 2017 16:06:54:  66000000 
INFO  @ Fri, 14 Apr 2017 16:06:56:  67000000 
INFO  @ Fri, 14 Apr 2017 16:06:57:  68000000 
INFO  @ Fri, 14 Apr 2017 16:06:59:  69000000 
INFO  @ Fri, 14 Apr 2017 16:07:01:  70000000 
INFO  @ Fri, 14 Apr 2017 16:07:02:  71000000 
INFO  @ Fri, 14 Apr 2017 16:07:04:  72000000 
INFO  @ Fri, 14 Apr 2017 16:07:06:  73000000 
INFO  @ Fri, 14 Apr 2017 16:07:07:  74000000 
INFO  @ Fri, 14 Apr 2017 16:07:09:  75000000 
INFO  @ Fri, 14 Apr 2017 16:07:11:  76000000 
INFO  @ Fri, 14 Apr 2017 16:07:12:  77000000 
INFO  @ Fri, 14 Apr 2017 16:07:14:  78000000 
INFO  @ Fri, 14 Apr 2017 16:07:16:  79000000 
INFO  @ Fri, 14 Apr 2017 16:07:17:  80000000 
INFO  @ Fri, 14 Apr 2017 16:07:19:  81000000 
INFO  @ Fri, 14 Apr 2017 16:07:20:  82000000 
INFO  @ Fri, 14 Apr 2017 16:07:22:  83000000 
INFO  @ Fri, 14 Apr 2017 16:07:23:  84000000 
INFO  @ Fri, 14 Apr 2017 16:07:25:  85000000 
INFO  @ Fri, 14 Apr 2017 16:07:27:  86000000 
INFO  @ Fri, 14 Apr 2017 16:07:29:  87000000 
INFO  @ Fri, 14 Apr 2017 16:07:30:  88000000 
INFO  @ Fri, 14 Apr 2017 16:07:32:  89000000 
INFO  @ Fri, 14 Apr 2017 16:07:33:  90000000 
INFO  @ Fri, 14 Apr 2017 16:07:35:  91000000 
INFO  @ Fri, 14 Apr 2017 16:07:36:  92000000 
INFO  @ Fri, 14 Apr 2017 16:07:38:  93000000 
INFO  @ Fri, 14 Apr 2017 16:07:40:  94000000 
INFO  @ Fri, 14 Apr 2017 16:07:42:  95000000 
INFO  @ Fri, 14 Apr 2017 16:07:43:  96000000 
INFO  @ Fri, 14 Apr 2017 16:07:45:  97000000 
INFO  @ Fri, 14 Apr 2017 16:07:46:  98000000 
INFO  @ Fri, 14 Apr 2017 16:07:48:  99000000 
INFO  @ Fri, 14 Apr 2017 16:07:49:  100000000 
INFO  @ Fri, 14 Apr 2017 16:07:51:  101000000 
INFO  @ Fri, 14 Apr 2017 16:07:53:  102000000 
INFO  @ Fri, 14 Apr 2017 16:07:55:  103000000 
INFO  @ Fri, 14 Apr 2017 16:07:56:  104000000 
INFO  @ Fri, 14 Apr 2017 16:07:58:  105000000 
INFO  @ Fri, 14 Apr 2017 16:07:59:  106000000 
INFO  @ Fri, 14 Apr 2017 16:08:01:  107000000 
INFO  @ Fri, 14 Apr 2017 16:08:02:  108000000 
INFO  @ Fri, 14 Apr 2017 16:08:04:  109000000 
INFO  @ Fri, 14 Apr 2017 16:08:14: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:08:16:  1000000 
INFO  @ Fri, 14 Apr 2017 16:08:18:  2000000 
INFO  @ Fri, 14 Apr 2017 16:08:19:  3000000 
INFO  @ Fri, 14 Apr 2017 16:08:21:  4000000 
INFO  @ Fri, 14 Apr 2017 16:08:23:  5000000 
INFO  @ Fri, 14 Apr 2017 16:08:24:  6000000 
INFO  @ Fri, 14 Apr 2017 16:08:26:  7000000 
INFO  @ Fri, 14 Apr 2017 16:08:27:  8000000 
INFO  @ Fri, 14 Apr 2017 16:08:29:  9000000 
INFO  @ Fri, 14 Apr 2017 16:08:30:  10000000 
INFO  @ Fri, 14 Apr 2017 16:08:32:  11000000 
INFO  @ Fri, 14 Apr 2017 16:08:34:  12000000 
INFO  @ Fri, 14 Apr 2017 16:08:35:  13000000 
INFO  @ Fri, 14 Apr 2017 16:08:37:  14000000 
INFO  @ Fri, 14 Apr 2017 16:08:38:  15000000 
INFO  @ Fri, 14 Apr 2017 16:08:40:  16000000 
INFO  @ Fri, 14 Apr 2017 16:08:42:  17000000 
INFO  @ Fri, 14 Apr 2017 16:08:44:  18000000 
INFO  @ Fri, 14 Apr 2017 16:08:45:  19000000 
INFO  @ Fri, 14 Apr 2017 16:08:47:  20000000 
INFO  @ Fri, 14 Apr 2017 16:08:48:  21000000 
INFO  @ Fri, 14 Apr 2017 16:08:50:  22000000 
INFO  @ Fri, 14 Apr 2017 16:08:51:  23000000 
INFO  @ Fri, 14 Apr 2017 16:08:53:  24000000 
INFO  @ Fri, 14 Apr 2017 16:08:55:  25000000 
INFO  @ Fri, 14 Apr 2017 16:08:56:  26000000 
INFO  @ Fri, 14 Apr 2017 16:08:58:  27000000 
INFO  @ Fri, 14 Apr 2017 16:09:00:  28000000 
INFO  @ Fri, 14 Apr 2017 16:09:01:  29000000 
INFO  @ Fri, 14 Apr 2017 16:09:03:  30000000 
INFO  @ Fri, 14 Apr 2017 16:09:04:  31000000 
INFO  @ Fri, 14 Apr 2017 16:09:06:  32000000 
INFO  @ Fri, 14 Apr 2017 16:09:08:  33000000 
INFO  @ Fri, 14 Apr 2017 16:09:09:  34000000 
INFO  @ Fri, 14 Apr 2017 16:09:11:  35000000 
INFO  @ Fri, 14 Apr 2017 16:09:13:  36000000 
INFO  @ Fri, 14 Apr 2017 16:09:15:  37000000 
INFO  @ Fri, 14 Apr 2017 16:09:16:  38000000 
INFO  @ Fri, 14 Apr 2017 16:09:18:  39000000 
INFO  @ Fri, 14 Apr 2017 16:09:19:  40000000 
INFO  @ Fri, 14 Apr 2017 16:09:21:  41000000 
INFO  @ Fri, 14 Apr 2017 16:09:22:  42000000 
INFO  @ Fri, 14 Apr 2017 16:09:24:  43000000 
INFO  @ Fri, 14 Apr 2017 16:09:25:  44000000 
INFO  @ Fri, 14 Apr 2017 16:09:27:  45000000 
INFO  @ Fri, 14 Apr 2017 16:09:28:  46000000 
INFO  @ Fri, 14 Apr 2017 16:09:30:  47000000 
INFO  @ Fri, 14 Apr 2017 16:09:32:  48000000 
INFO  @ Fri, 14 Apr 2017 16:09:33:  49000000 
INFO  @ Fri, 14 Apr 2017 16:09:35:  50000000 
INFO  @ Fri, 14 Apr 2017 16:09:36:  51000000 
INFO  @ Fri, 14 Apr 2017 16:09:38:  52000000 
INFO  @ Fri, 14 Apr 2017 16:09:40:  53000000 
INFO  @ Fri, 14 Apr 2017 16:09:41:  54000000 
INFO  @ Fri, 14 Apr 2017 16:09:43:  55000000 
INFO  @ Fri, 14 Apr 2017 16:09:44:  56000000 
INFO  @ Fri, 14 Apr 2017 16:09:46:  57000000 
INFO  @ Fri, 14 Apr 2017 16:09:48:  58000000 
INFO  @ Fri, 14 Apr 2017 16:09:50:  59000000 
INFO  @ Fri, 14 Apr 2017 16:09:52:  60000000 
INFO  @ Fri, 14 Apr 2017 16:09:53:  61000000 
INFO  @ Fri, 14 Apr 2017 16:09:55:  62000000 
INFO  @ Fri, 14 Apr 2017 16:09:56:  63000000 
INFO  @ Fri, 14 Apr 2017 16:09:58:  64000000 
INFO  @ Fri, 14 Apr 2017 16:10:00:  65000000 
INFO  @ Fri, 14 Apr 2017 16:10:01:  66000000 
INFO  @ Fri, 14 Apr 2017 16:10:03:  67000000 
INFO  @ Fri, 14 Apr 2017 16:10:05:  68000000 
INFO  @ Fri, 14 Apr 2017 16:10:06:  69000000 
INFO  @ Fri, 14 Apr 2017 16:10:08:  70000000 
INFO  @ Fri, 14 Apr 2017 16:10:10:  71000000 
INFO  @ Fri, 14 Apr 2017 16:10:12:  72000000 
INFO  @ Fri, 14 Apr 2017 16:10:13:  73000000 
INFO  @ Fri, 14 Apr 2017 16:10:15:  74000000 
INFO  @ Fri, 14 Apr 2017 16:10:16:  75000000 
INFO  @ Fri, 14 Apr 2017 16:10:18:  76000000 
INFO  @ Fri, 14 Apr 2017 16:10:19:  77000000 
INFO  @ Fri, 14 Apr 2017 16:10:21:  78000000 
INFO  @ Fri, 14 Apr 2017 16:10:22:  79000000 
INFO  @ Fri, 14 Apr 2017 16:10:24:  80000000 
INFO  @ Fri, 14 Apr 2017 16:10:26:  81000000 
INFO  @ Fri, 14 Apr 2017 16:10:28:  82000000 
INFO  @ Fri, 14 Apr 2017 16:10:29:  83000000 
INFO  @ Fri, 14 Apr 2017 16:10:31:  84000000 
INFO  @ Fri, 14 Apr 2017 16:10:32:  85000000 
INFO  @ Fri, 14 Apr 2017 16:10:34:  86000000 
INFO  @ Fri, 14 Apr 2017 16:10:35:  87000000 
INFO  @ Fri, 14 Apr 2017 16:10:37:  88000000 
INFO  @ Fri, 14 Apr 2017 16:10:39:  89000000 
INFO  @ Fri, 14 Apr 2017 16:10:41:  90000000 
INFO  @ Fri, 14 Apr 2017 16:10:42:  91000000 
INFO  @ Fri, 14 Apr 2017 16:10:44:  92000000 
INFO  @ Fri, 14 Apr 2017 16:10:45:  93000000 
INFO  @ Fri, 14 Apr 2017 16:10:47:  94000000 
INFO  @ Fri, 14 Apr 2017 16:10:49:  95000000 
INFO  @ Fri, 14 Apr 2017 16:10:50:  96000000 
INFO  @ Fri, 14 Apr 2017 16:10:52:  97000000 
INFO  @ Fri, 14 Apr 2017 16:10:54:  98000000 
INFO  @ Fri, 14 Apr 2017 16:10:56:  99000000 
INFO  @ Fri, 14 Apr 2017 16:11:04: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:11:04: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:11:04: #1  total tags in treatment: 109867660 
INFO  @ Fri, 14 Apr 2017 16:11:04: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:11:04: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:11:04: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:11:04: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:11:04: #2 Use 238 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:11:04: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:11:04: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:11:04: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:18:04: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:21:48: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:21:48: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:21:48: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:21:49: Done!

Num	3
ID	task.callpeak_macs2.macs2_g_b_ppr2.line_155.id_12
Name	macs2 g/b ppr2
Thread	thread_Root
PID	47060

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:04:37
End	2017-04-14 16:21:49
Elapsed	00:17:12
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 238 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
1383 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:05:05: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 238 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:05:07:  1000000 
INFO  @ Fri, 14 Apr 2017 16:05:09:  2000000 
INFO  @ Fri, 14 Apr 2017 16:05:10:  3000000 
INFO  @ Fri, 14 Apr 2017 16:05:12:  4000000 
INFO  @ Fri, 14 Apr 2017 16:05:14:  5000000 
INFO  @ Fri, 14 Apr 2017 16:05:15:  6000000 
INFO  @ Fri, 14 Apr 2017 16:05:17:  7000000 
INFO  @ Fri, 14 Apr 2017 16:05:19:  8000000 
INFO  @ Fri, 14 Apr 2017 16:05:20:  9000000 
INFO  @ Fri, 14 Apr 2017 16:05:22:  10000000 
INFO  @ Fri, 14 Apr 2017 16:05:23:  11000000 
INFO  @ Fri, 14 Apr 2017 16:05:25:  12000000 
INFO  @ Fri, 14 Apr 2017 16:05:27:  13000000 
INFO  @ Fri, 14 Apr 2017 16:05:29:  14000000 
INFO  @ Fri, 14 Apr 2017 16:05:30:  15000000 
INFO  @ Fri, 14 Apr 2017 16:05:32:  16000000 
INFO  @ Fri, 14 Apr 2017 16:05:34:  17000000 
INFO  @ Fri, 14 Apr 2017 16:05:36:  18000000 
INFO  @ Fri, 14 Apr 2017 16:05:37:  19000000 
INFO  @ Fri, 14 Apr 2017 16:05:39:  20000000 
INFO  @ Fri, 14 Apr 2017 16:05:40:  21000000 
INFO  @ Fri, 14 Apr 2017 16:05:42:  22000000 
INFO  @ Fri, 14 Apr 2017 16:05:44:  23000000 
INFO  @ Fri, 14 Apr 2017 16:05:46:  24000000 
INFO  @ Fri, 14 Apr 2017 16:05:48:  25000000 
INFO  @ Fri, 14 Apr 2017 16:05:49:  26000000 
INFO  @ Fri, 14 Apr 2017 16:05:51:  27000000 
INFO  @ Fri, 14 Apr 2017 16:05:53:  28000000 
INFO  @ Fri, 14 Apr 2017 16:05:55:  29000000 
INFO  @ Fri, 14 Apr 2017 16:05:57:  30000000 
INFO  @ Fri, 14 Apr 2017 16:05:58:  31000000 
INFO  @ Fri, 14 Apr 2017 16:06:00:  32000000 
INFO  @ Fri, 14 Apr 2017 16:06:01:  33000000 
INFO  @ Fri, 14 Apr 2017 16:06:03:  34000000 
INFO  @ Fri, 14 Apr 2017 16:06:05:  35000000 
INFO  @ Fri, 14 Apr 2017 16:06:06:  36000000 
INFO  @ Fri, 14 Apr 2017 16:06:08:  37000000 
INFO  @ Fri, 14 Apr 2017 16:06:10:  38000000 
INFO  @ Fri, 14 Apr 2017 16:06:11:  39000000 
INFO  @ Fri, 14 Apr 2017 16:06:13:  40000000 
INFO  @ Fri, 14 Apr 2017 16:06:15:  41000000 
INFO  @ Fri, 14 Apr 2017 16:06:16:  42000000 
INFO  @ Fri, 14 Apr 2017 16:06:18:  43000000 
INFO  @ Fri, 14 Apr 2017 16:06:19:  44000000 
INFO  @ Fri, 14 Apr 2017 16:06:21:  45000000 
INFO  @ Fri, 14 Apr 2017 16:06:23:  46000000 
INFO  @ Fri, 14 Apr 2017 16:06:25:  47000000 
INFO  @ Fri, 14 Apr 2017 16:06:26:  48000000 
INFO  @ Fri, 14 Apr 2017 16:06:28:  49000000 
INFO  @ Fri, 14 Apr 2017 16:06:29:  50000000 
INFO  @ Fri, 14 Apr 2017 16:06:31:  51000000 
INFO  @ Fri, 14 Apr 2017 16:06:33:  52000000 
INFO  @ Fri, 14 Apr 2017 16:06:35:  53000000 
INFO  @ Fri, 14 Apr 2017 16:06:36:  54000000 
INFO  @ Fri, 14 Apr 2017 16:06:38:  55000000 
INFO  @ Fri, 14 Apr 2017 16:06:40:  56000000 
INFO  @ Fri, 14 Apr 2017 16:06:42:  57000000 
INFO  @ Fri, 14 Apr 2017 16:06:44:  58000000 
INFO  @ Fri, 14 Apr 2017 16:06:45:  59000000 
INFO  @ Fri, 14 Apr 2017 16:06:47:  60000000 
INFO  @ Fri, 14 Apr 2017 16:06:48:  61000000 
INFO  @ Fri, 14 Apr 2017 16:06:50:  62000000 
INFO  @ Fri, 14 Apr 2017 16:06:51:  63000000 
INFO  @ Fri, 14 Apr 2017 16:06:53:  64000000 
INFO  @ Fri, 14 Apr 2017 16:06:55:  65000000 
INFO  @ Fri, 14 Apr 2017 16:06:57:  66000000 
INFO  @ Fri, 14 Apr 2017 16:06:58:  67000000 
INFO  @ Fri, 14 Apr 2017 16:07:00:  68000000 
INFO  @ Fri, 14 Apr 2017 16:07:02:  69000000 
INFO  @ Fri, 14 Apr 2017 16:07:03:  70000000 
INFO  @ Fri, 14 Apr 2017 16:07:05:  71000000 
INFO  @ Fri, 14 Apr 2017 16:07:07:  72000000 
INFO  @ Fri, 14 Apr 2017 16:07:08:  73000000 
INFO  @ Fri, 14 Apr 2017 16:07:10:  74000000 
INFO  @ Fri, 14 Apr 2017 16:07:11:  75000000 
INFO  @ Fri, 14 Apr 2017 16:07:13:  76000000 
INFO  @ Fri, 14 Apr 2017 16:07:15:  77000000 
INFO  @ Fri, 14 Apr 2017 16:07:16:  78000000 
INFO  @ Fri, 14 Apr 2017 16:07:18:  79000000 
INFO  @ Fri, 14 Apr 2017 16:07:20:  80000000 
INFO  @ Fri, 14 Apr 2017 16:07:21:  81000000 
INFO  @ Fri, 14 Apr 2017 16:07:23:  82000000 
INFO  @ Fri, 14 Apr 2017 16:07:25:  83000000 
INFO  @ Fri, 14 Apr 2017 16:07:27:  84000000 
INFO  @ Fri, 14 Apr 2017 16:07:28:  85000000 
INFO  @ Fri, 14 Apr 2017 16:07:30:  86000000 
INFO  @ Fri, 14 Apr 2017 16:07:32:  87000000 
INFO  @ Fri, 14 Apr 2017 16:07:33:  88000000 
INFO  @ Fri, 14 Apr 2017 16:07:35:  89000000 
INFO  @ Fri, 14 Apr 2017 16:07:36:  90000000 
INFO  @ Fri, 14 Apr 2017 16:07:38:  91000000 
INFO  @ Fri, 14 Apr 2017 16:07:40:  92000000 
INFO  @ Fri, 14 Apr 2017 16:07:41:  93000000 
INFO  @ Fri, 14 Apr 2017 16:07:43:  94000000 
INFO  @ Fri, 14 Apr 2017 16:07:45:  95000000 
INFO  @ Fri, 14 Apr 2017 16:07:46:  96000000 
INFO  @ Fri, 14 Apr 2017 16:07:48:  97000000 
INFO  @ Fri, 14 Apr 2017 16:07:49:  98000000 
INFO  @ Fri, 14 Apr 2017 16:07:51:  99000000 
INFO  @ Fri, 14 Apr 2017 16:07:52:  100000000 
INFO  @ Fri, 14 Apr 2017 16:07:54:  101000000 
INFO  @ Fri, 14 Apr 2017 16:07:56:  102000000 
INFO  @ Fri, 14 Apr 2017 16:07:57:  103000000 
INFO  @ Fri, 14 Apr 2017 16:07:59:  104000000 
INFO  @ Fri, 14 Apr 2017 16:08:01:  105000000 
INFO  @ Fri, 14 Apr 2017 16:08:02:  106000000 
INFO  @ Fri, 14 Apr 2017 16:08:04:  107000000 
INFO  @ Fri, 14 Apr 2017 16:08:06:  108000000 
INFO  @ Fri, 14 Apr 2017 16:08:07:  109000000 
INFO  @ Fri, 14 Apr 2017 16:08:17: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:08:18:  1000000 
INFO  @ Fri, 14 Apr 2017 16:08:20:  2000000 
INFO  @ Fri, 14 Apr 2017 16:08:22:  3000000 
INFO  @ Fri, 14 Apr 2017 16:08:23:  4000000 
INFO  @ Fri, 14 Apr 2017 16:08:25:  5000000 
INFO  @ Fri, 14 Apr 2017 16:08:27:  6000000 
INFO  @ Fri, 14 Apr 2017 16:08:28:  7000000 
INFO  @ Fri, 14 Apr 2017 16:08:30:  8000000 
INFO  @ Fri, 14 Apr 2017 16:08:31:  9000000 
INFO  @ Fri, 14 Apr 2017 16:08:33:  10000000 
INFO  @ Fri, 14 Apr 2017 16:08:35:  11000000 
INFO  @ Fri, 14 Apr 2017 16:08:36:  12000000 
INFO  @ Fri, 14 Apr 2017 16:08:38:  13000000 
INFO  @ Fri, 14 Apr 2017 16:08:39:  14000000 
INFO  @ Fri, 14 Apr 2017 16:08:41:  15000000 
INFO  @ Fri, 14 Apr 2017 16:08:42:  16000000 
INFO  @ Fri, 14 Apr 2017 16:08:44:  17000000 
INFO  @ Fri, 14 Apr 2017 16:08:45:  18000000 
INFO  @ Fri, 14 Apr 2017 16:08:47:  19000000 
INFO  @ Fri, 14 Apr 2017 16:08:49:  20000000 
INFO  @ Fri, 14 Apr 2017 16:08:50:  21000000 
INFO  @ Fri, 14 Apr 2017 16:08:52:  22000000 
INFO  @ Fri, 14 Apr 2017 16:08:53:  23000000 
INFO  @ Fri, 14 Apr 2017 16:08:55:  24000000 
INFO  @ Fri, 14 Apr 2017 16:08:57:  25000000 
INFO  @ Fri, 14 Apr 2017 16:08:58:  26000000 
INFO  @ Fri, 14 Apr 2017 16:09:00:  27000000 
INFO  @ Fri, 14 Apr 2017 16:09:02:  28000000 
INFO  @ Fri, 14 Apr 2017 16:09:03:  29000000 
INFO  @ Fri, 14 Apr 2017 16:09:05:  30000000 
INFO  @ Fri, 14 Apr 2017 16:09:07:  31000000 
INFO  @ Fri, 14 Apr 2017 16:09:08:  32000000 
INFO  @ Fri, 14 Apr 2017 16:09:10:  33000000 
INFO  @ Fri, 14 Apr 2017 16:09:11:  34000000 
INFO  @ Fri, 14 Apr 2017 16:09:13:  35000000 
INFO  @ Fri, 14 Apr 2017 16:09:14:  36000000 
INFO  @ Fri, 14 Apr 2017 16:09:16:  37000000 
INFO  @ Fri, 14 Apr 2017 16:09:18:  38000000 
INFO  @ Fri, 14 Apr 2017 16:09:20:  39000000 
INFO  @ Fri, 14 Apr 2017 16:09:21:  40000000 
INFO  @ Fri, 14 Apr 2017 16:09:23:  41000000 
INFO  @ Fri, 14 Apr 2017 16:09:25:  42000000 
INFO  @ Fri, 14 Apr 2017 16:09:26:  43000000 
INFO  @ Fri, 14 Apr 2017 16:09:28:  44000000 
INFO  @ Fri, 14 Apr 2017 16:09:30:  45000000 
INFO  @ Fri, 14 Apr 2017 16:09:32:  46000000 
INFO  @ Fri, 14 Apr 2017 16:09:33:  47000000 
INFO  @ Fri, 14 Apr 2017 16:09:35:  48000000 
INFO  @ Fri, 14 Apr 2017 16:09:36:  49000000 
INFO  @ Fri, 14 Apr 2017 16:09:38:  50000000 
INFO  @ Fri, 14 Apr 2017 16:09:39:  51000000 
INFO  @ Fri, 14 Apr 2017 16:09:41:  52000000 
INFO  @ Fri, 14 Apr 2017 16:09:42:  53000000 
INFO  @ Fri, 14 Apr 2017 16:09:44:  54000000 
INFO  @ Fri, 14 Apr 2017 16:09:45:  55000000 
INFO  @ Fri, 14 Apr 2017 16:09:47:  56000000 
INFO  @ Fri, 14 Apr 2017 16:09:49:  57000000 
INFO  @ Fri, 14 Apr 2017 16:09:50:  58000000 
INFO  @ Fri, 14 Apr 2017 16:09:52:  59000000 
INFO  @ Fri, 14 Apr 2017 16:09:53:  60000000 
INFO  @ Fri, 14 Apr 2017 16:09:55:  61000000 
INFO  @ Fri, 14 Apr 2017 16:09:57:  62000000 
INFO  @ Fri, 14 Apr 2017 16:09:58:  63000000 
INFO  @ Fri, 14 Apr 2017 16:10:00:  64000000 
INFO  @ Fri, 14 Apr 2017 16:10:01:  65000000 
INFO  @ Fri, 14 Apr 2017 16:10:03:  66000000 
INFO  @ Fri, 14 Apr 2017 16:10:05:  67000000 
INFO  @ Fri, 14 Apr 2017 16:10:06:  68000000 
INFO  @ Fri, 14 Apr 2017 16:10:08:  69000000 
INFO  @ Fri, 14 Apr 2017 16:10:09:  70000000 
INFO  @ Fri, 14 Apr 2017 16:10:11:  71000000 
INFO  @ Fri, 14 Apr 2017 16:10:13:  72000000 
INFO  @ Fri, 14 Apr 2017 16:10:14:  73000000 
INFO  @ Fri, 14 Apr 2017 16:10:16:  74000000 
INFO  @ Fri, 14 Apr 2017 16:10:17:  75000000 
INFO  @ Fri, 14 Apr 2017 16:10:19:  76000000 
INFO  @ Fri, 14 Apr 2017 16:10:21:  77000000 
INFO  @ Fri, 14 Apr 2017 16:10:22:  78000000 
INFO  @ Fri, 14 Apr 2017 16:10:24:  79000000 
INFO  @ Fri, 14 Apr 2017 16:10:26:  80000000 
INFO  @ Fri, 14 Apr 2017 16:10:27:  81000000 
INFO  @ Fri, 14 Apr 2017 16:10:29:  82000000 
INFO  @ Fri, 14 Apr 2017 16:10:30:  83000000 
INFO  @ Fri, 14 Apr 2017 16:10:32:  84000000 
INFO  @ Fri, 14 Apr 2017 16:10:34:  85000000 
INFO  @ Fri, 14 Apr 2017 16:10:35:  86000000 
INFO  @ Fri, 14 Apr 2017 16:10:37:  87000000 
INFO  @ Fri, 14 Apr 2017 16:10:38:  88000000 
INFO  @ Fri, 14 Apr 2017 16:10:40:  89000000 
INFO  @ Fri, 14 Apr 2017 16:10:41:  90000000 
INFO  @ Fri, 14 Apr 2017 16:10:43:  91000000 
INFO  @ Fri, 14 Apr 2017 16:10:45:  92000000 
INFO  @ Fri, 14 Apr 2017 16:10:47:  93000000 
INFO  @ Fri, 14 Apr 2017 16:10:48:  94000000 
INFO  @ Fri, 14 Apr 2017 16:10:50:  95000000 
INFO  @ Fri, 14 Apr 2017 16:10:51:  96000000 
INFO  @ Fri, 14 Apr 2017 16:10:53:  97000000 
INFO  @ Fri, 14 Apr 2017 16:10:54:  98000000 
INFO  @ Fri, 14 Apr 2017 16:10:56:  99000000 
INFO  @ Fri, 14 Apr 2017 16:11:05: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:11:05: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:11:05: #1  total tags in treatment: 109867658 
INFO  @ Fri, 14 Apr 2017 16:11:05: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:11:05: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:11:05: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:11:05: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:11:05: #2 Use 238 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:11:05: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:11:05: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:11:05: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:18:03: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:21:46: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:21:46: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:21:46: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:21:47: Done!

Num	4
ID	task.callpeak_macs2.macs2_g_b_rep1.line_155.id_13
Name	macs2 g/b rep1
Thread	thread_Root
PID	47061

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:04:39
End	2017-04-14 16:21:19
Elapsed	00:16:39
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep1/ENCFF066ZSK.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep1/ENCFF066ZSK.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 235 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
1386 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:05:05: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep1/ENCFF066ZSK.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 235 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep1/ENCFF066ZSK.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:05:07:  1000000 
INFO  @ Fri, 14 Apr 2017 16:05:09:  2000000 
INFO  @ Fri, 14 Apr 2017 16:05:11:  3000000 
INFO  @ Fri, 14 Apr 2017 16:05:12:  4000000 
INFO  @ Fri, 14 Apr 2017 16:05:14:  5000000 
INFO  @ Fri, 14 Apr 2017 16:05:15:  6000000 
INFO  @ Fri, 14 Apr 2017 16:05:17:  7000000 
INFO  @ Fri, 14 Apr 2017 16:05:18:  8000000 
INFO  @ Fri, 14 Apr 2017 16:05:20:  9000000 
INFO  @ Fri, 14 Apr 2017 16:05:21:  10000000 
INFO  @ Fri, 14 Apr 2017 16:05:23:  11000000 
INFO  @ Fri, 14 Apr 2017 16:05:24:  12000000 
INFO  @ Fri, 14 Apr 2017 16:05:26:  13000000 
INFO  @ Fri, 14 Apr 2017 16:05:27:  14000000 
INFO  @ Fri, 14 Apr 2017 16:05:29:  15000000 
INFO  @ Fri, 14 Apr 2017 16:05:30:  16000000 
INFO  @ Fri, 14 Apr 2017 16:05:32:  17000000 
INFO  @ Fri, 14 Apr 2017 16:05:33:  18000000 
INFO  @ Fri, 14 Apr 2017 16:05:34:  19000000 
INFO  @ Fri, 14 Apr 2017 16:05:36:  20000000 
INFO  @ Fri, 14 Apr 2017 16:05:37:  21000000 
INFO  @ Fri, 14 Apr 2017 16:05:39:  22000000 
INFO  @ Fri, 14 Apr 2017 16:05:40:  23000000 
INFO  @ Fri, 14 Apr 2017 16:05:42:  24000000 
INFO  @ Fri, 14 Apr 2017 16:05:43:  25000000 
INFO  @ Fri, 14 Apr 2017 16:05:45:  26000000 
INFO  @ Fri, 14 Apr 2017 16:05:46:  27000000 
INFO  @ Fri, 14 Apr 2017 16:05:48:  28000000 
INFO  @ Fri, 14 Apr 2017 16:05:49:  29000000 
INFO  @ Fri, 14 Apr 2017 16:05:51:  30000000 
INFO  @ Fri, 14 Apr 2017 16:05:52:  31000000 
INFO  @ Fri, 14 Apr 2017 16:05:54:  32000000 
INFO  @ Fri, 14 Apr 2017 16:05:55:  33000000 
INFO  @ Fri, 14 Apr 2017 16:05:57:  34000000 
INFO  @ Fri, 14 Apr 2017 16:05:58:  35000000 
INFO  @ Fri, 14 Apr 2017 16:06:00:  36000000 
INFO  @ Fri, 14 Apr 2017 16:06:01:  37000000 
INFO  @ Fri, 14 Apr 2017 16:06:03:  38000000 
INFO  @ Fri, 14 Apr 2017 16:06:04:  39000000 
INFO  @ Fri, 14 Apr 2017 16:06:05:  40000000 
INFO  @ Fri, 14 Apr 2017 16:06:07:  41000000 
INFO  @ Fri, 14 Apr 2017 16:06:08:  42000000 
INFO  @ Fri, 14 Apr 2017 16:06:10:  43000000 
INFO  @ Fri, 14 Apr 2017 16:06:11:  44000000 
INFO  @ Fri, 14 Apr 2017 16:06:13:  45000000 
INFO  @ Fri, 14 Apr 2017 16:06:14:  46000000 
INFO  @ Fri, 14 Apr 2017 16:06:16:  47000000 
INFO  @ Fri, 14 Apr 2017 16:06:17:  48000000 
INFO  @ Fri, 14 Apr 2017 16:06:19:  49000000 
INFO  @ Fri, 14 Apr 2017 16:06:20:  50000000 
INFO  @ Fri, 14 Apr 2017 16:06:22:  51000000 
INFO  @ Fri, 14 Apr 2017 16:06:23:  52000000 
INFO  @ Fri, 14 Apr 2017 16:06:24:  53000000 
INFO  @ Fri, 14 Apr 2017 16:06:26:  54000000 
INFO  @ Fri, 14 Apr 2017 16:06:27:  55000000 
INFO  @ Fri, 14 Apr 2017 16:06:29:  56000000 
INFO  @ Fri, 14 Apr 2017 16:06:30:  57000000 
INFO  @ Fri, 14 Apr 2017 16:06:32:  58000000 
INFO  @ Fri, 14 Apr 2017 16:06:33:  59000000 
INFO  @ Fri, 14 Apr 2017 16:06:35:  60000000 
INFO  @ Fri, 14 Apr 2017 16:06:36:  61000000 
INFO  @ Fri, 14 Apr 2017 16:06:38:  62000000 
INFO  @ Fri, 14 Apr 2017 16:06:39:  63000000 
INFO  @ Fri, 14 Apr 2017 16:06:41:  64000000 
INFO  @ Fri, 14 Apr 2017 16:06:42:  65000000 
INFO  @ Fri, 14 Apr 2017 16:06:44:  66000000 
INFO  @ Fri, 14 Apr 2017 16:06:45:  67000000 
INFO  @ Fri, 14 Apr 2017 16:06:47:  68000000 
INFO  @ Fri, 14 Apr 2017 16:06:48:  69000000 
INFO  @ Fri, 14 Apr 2017 16:06:49:  70000000 
INFO  @ Fri, 14 Apr 2017 16:06:51:  71000000 
INFO  @ Fri, 14 Apr 2017 16:06:52:  72000000 
INFO  @ Fri, 14 Apr 2017 16:06:54:  73000000 
INFO  @ Fri, 14 Apr 2017 16:06:55:  74000000 
INFO  @ Fri, 14 Apr 2017 16:06:57:  75000000 
INFO  @ Fri, 14 Apr 2017 16:06:58:  76000000 
INFO  @ Fri, 14 Apr 2017 16:07:00:  77000000 
INFO  @ Fri, 14 Apr 2017 16:07:01:  78000000 
INFO  @ Fri, 14 Apr 2017 16:07:03:  79000000 
INFO  @ Fri, 14 Apr 2017 16:07:04:  80000000 
INFO  @ Fri, 14 Apr 2017 16:07:06:  81000000 
INFO  @ Fri, 14 Apr 2017 16:07:07:  82000000 
INFO  @ Fri, 14 Apr 2017 16:07:09:  83000000 
INFO  @ Fri, 14 Apr 2017 16:07:10:  84000000 
INFO  @ Fri, 14 Apr 2017 16:07:12:  85000000 
INFO  @ Fri, 14 Apr 2017 16:07:13:  86000000 
INFO  @ Fri, 14 Apr 2017 16:07:15:  87000000 
INFO  @ Fri, 14 Apr 2017 16:07:16:  88000000 
INFO  @ Fri, 14 Apr 2017 16:07:18:  89000000 
INFO  @ Fri, 14 Apr 2017 16:07:19:  90000000 
INFO  @ Fri, 14 Apr 2017 16:07:20:  91000000 
INFO  @ Fri, 14 Apr 2017 16:07:22:  92000000 
INFO  @ Fri, 14 Apr 2017 16:07:23:  93000000 
INFO  @ Fri, 14 Apr 2017 16:07:25:  94000000 
INFO  @ Fri, 14 Apr 2017 16:07:26:  95000000 
INFO  @ Fri, 14 Apr 2017 16:07:28:  96000000 
INFO  @ Fri, 14 Apr 2017 16:07:29:  97000000 
INFO  @ Fri, 14 Apr 2017 16:07:31:  98000000 
INFO  @ Fri, 14 Apr 2017 16:07:32:  99000000 
INFO  @ Fri, 14 Apr 2017 16:07:34:  100000000 
INFO  @ Fri, 14 Apr 2017 16:07:35:  101000000 
INFO  @ Fri, 14 Apr 2017 16:07:36:  102000000 
INFO  @ Fri, 14 Apr 2017 16:07:38:  103000000 
INFO  @ Fri, 14 Apr 2017 16:07:39:  104000000 
INFO  @ Fri, 14 Apr 2017 16:07:41:  105000000 
INFO  @ Fri, 14 Apr 2017 16:07:42:  106000000 
INFO  @ Fri, 14 Apr 2017 16:07:44:  107000000 
INFO  @ Fri, 14 Apr 2017 16:07:45:  108000000 
INFO  @ Fri, 14 Apr 2017 16:07:47:  109000000 
INFO  @ Fri, 14 Apr 2017 16:07:48:  110000000 
INFO  @ Fri, 14 Apr 2017 16:07:50:  111000000 
INFO  @ Fri, 14 Apr 2017 16:07:51:  112000000 
INFO  @ Fri, 14 Apr 2017 16:07:52:  113000000 
INFO  @ Fri, 14 Apr 2017 16:07:54:  114000000 
INFO  @ Fri, 14 Apr 2017 16:07:55:  115000000 
INFO  @ Fri, 14 Apr 2017 16:07:57:  116000000 
INFO  @ Fri, 14 Apr 2017 16:07:58:  117000000 
INFO  @ Fri, 14 Apr 2017 16:08:00:  118000000 
INFO  @ Fri, 14 Apr 2017 16:08:01:  119000000 
INFO  @ Fri, 14 Apr 2017 16:08:03:  120000000 
INFO  @ Fri, 14 Apr 2017 16:08:04:  121000000 
INFO  @ Fri, 14 Apr 2017 16:08:06:  122000000 
INFO  @ Fri, 14 Apr 2017 16:08:07:  123000000 
INFO  @ Fri, 14 Apr 2017 16:08:09:  124000000 
INFO  @ Fri, 14 Apr 2017 16:08:10:  125000000 
INFO  @ Fri, 14 Apr 2017 16:08:12:  126000000 
INFO  @ Fri, 14 Apr 2017 16:08:13:  127000000 
INFO  @ Fri, 14 Apr 2017 16:08:23: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:08:24:  1000000 
INFO  @ Fri, 14 Apr 2017 16:08:26:  2000000 
INFO  @ Fri, 14 Apr 2017 16:08:27:  3000000 
INFO  @ Fri, 14 Apr 2017 16:08:29:  4000000 
INFO  @ Fri, 14 Apr 2017 16:08:30:  5000000 
INFO  @ Fri, 14 Apr 2017 16:08:31:  6000000 
INFO  @ Fri, 14 Apr 2017 16:08:33:  7000000 
INFO  @ Fri, 14 Apr 2017 16:08:34:  8000000 
INFO  @ Fri, 14 Apr 2017 16:08:36:  9000000 
INFO  @ Fri, 14 Apr 2017 16:08:37:  10000000 
INFO  @ Fri, 14 Apr 2017 16:08:39:  11000000 
INFO  @ Fri, 14 Apr 2017 16:08:40:  12000000 
INFO  @ Fri, 14 Apr 2017 16:08:42:  13000000 
INFO  @ Fri, 14 Apr 2017 16:08:43:  14000000 
INFO  @ Fri, 14 Apr 2017 16:08:45:  15000000 
INFO  @ Fri, 14 Apr 2017 16:08:46:  16000000 
INFO  @ Fri, 14 Apr 2017 16:08:48:  17000000 
INFO  @ Fri, 14 Apr 2017 16:08:49:  18000000 
INFO  @ Fri, 14 Apr 2017 16:08:50:  19000000 
INFO  @ Fri, 14 Apr 2017 16:08:52:  20000000 
INFO  @ Fri, 14 Apr 2017 16:08:53:  21000000 
INFO  @ Fri, 14 Apr 2017 16:08:55:  22000000 
INFO  @ Fri, 14 Apr 2017 16:08:56:  23000000 
INFO  @ Fri, 14 Apr 2017 16:08:58:  24000000 
INFO  @ Fri, 14 Apr 2017 16:08:59:  25000000 
INFO  @ Fri, 14 Apr 2017 16:09:01:  26000000 
INFO  @ Fri, 14 Apr 2017 16:09:02:  27000000 
INFO  @ Fri, 14 Apr 2017 16:09:04:  28000000 
INFO  @ Fri, 14 Apr 2017 16:09:05:  29000000 
INFO  @ Fri, 14 Apr 2017 16:09:07:  30000000 
INFO  @ Fri, 14 Apr 2017 16:09:08:  31000000 
INFO  @ Fri, 14 Apr 2017 16:09:10:  32000000 
INFO  @ Fri, 14 Apr 2017 16:09:11:  33000000 
INFO  @ Fri, 14 Apr 2017 16:09:13:  34000000 
INFO  @ Fri, 14 Apr 2017 16:09:14:  35000000 
INFO  @ Fri, 14 Apr 2017 16:09:16:  36000000 
INFO  @ Fri, 14 Apr 2017 16:09:17:  37000000 
INFO  @ Fri, 14 Apr 2017 16:09:18:  38000000 
INFO  @ Fri, 14 Apr 2017 16:09:20:  39000000 
INFO  @ Fri, 14 Apr 2017 16:09:21:  40000000 
INFO  @ Fri, 14 Apr 2017 16:09:23:  41000000 
INFO  @ Fri, 14 Apr 2017 16:09:24:  42000000 
INFO  @ Fri, 14 Apr 2017 16:09:26:  43000000 
INFO  @ Fri, 14 Apr 2017 16:09:27:  44000000 
INFO  @ Fri, 14 Apr 2017 16:09:29:  45000000 
INFO  @ Fri, 14 Apr 2017 16:09:30:  46000000 
INFO  @ Fri, 14 Apr 2017 16:09:32:  47000000 
INFO  @ Fri, 14 Apr 2017 16:09:33:  48000000 
INFO  @ Fri, 14 Apr 2017 16:09:35:  49000000 
INFO  @ Fri, 14 Apr 2017 16:09:36:  50000000 
INFO  @ Fri, 14 Apr 2017 16:09:38:  51000000 
INFO  @ Fri, 14 Apr 2017 16:09:39:  52000000 
INFO  @ Fri, 14 Apr 2017 16:09:41:  53000000 
INFO  @ Fri, 14 Apr 2017 16:09:42:  54000000 
INFO  @ Fri, 14 Apr 2017 16:09:43:  55000000 
INFO  @ Fri, 14 Apr 2017 16:09:45:  56000000 
INFO  @ Fri, 14 Apr 2017 16:09:46:  57000000 
INFO  @ Fri, 14 Apr 2017 16:09:48:  58000000 
INFO  @ Fri, 14 Apr 2017 16:09:49:  59000000 
INFO  @ Fri, 14 Apr 2017 16:09:51:  60000000 
INFO  @ Fri, 14 Apr 2017 16:09:52:  61000000 
INFO  @ Fri, 14 Apr 2017 16:09:54:  62000000 
INFO  @ Fri, 14 Apr 2017 16:09:55:  63000000 
INFO  @ Fri, 14 Apr 2017 16:09:57:  64000000 
INFO  @ Fri, 14 Apr 2017 16:09:58:  65000000 
INFO  @ Fri, 14 Apr 2017 16:10:00:  66000000 
INFO  @ Fri, 14 Apr 2017 16:10:01:  67000000 
INFO  @ Fri, 14 Apr 2017 16:10:02:  68000000 
INFO  @ Fri, 14 Apr 2017 16:10:04:  69000000 
INFO  @ Fri, 14 Apr 2017 16:10:05:  70000000 
INFO  @ Fri, 14 Apr 2017 16:10:07:  71000000 
INFO  @ Fri, 14 Apr 2017 16:10:08:  72000000 
INFO  @ Fri, 14 Apr 2017 16:10:10:  73000000 
INFO  @ Fri, 14 Apr 2017 16:10:11:  74000000 
INFO  @ Fri, 14 Apr 2017 16:10:13:  75000000 
INFO  @ Fri, 14 Apr 2017 16:10:14:  76000000 
INFO  @ Fri, 14 Apr 2017 16:10:16:  77000000 
INFO  @ Fri, 14 Apr 2017 16:10:17:  78000000 
INFO  @ Fri, 14 Apr 2017 16:10:19:  79000000 
INFO  @ Fri, 14 Apr 2017 16:10:20:  80000000 
INFO  @ Fri, 14 Apr 2017 16:10:22:  81000000 
INFO  @ Fri, 14 Apr 2017 16:10:23:  82000000 
INFO  @ Fri, 14 Apr 2017 16:10:24:  83000000 
INFO  @ Fri, 14 Apr 2017 16:10:26:  84000000 
INFO  @ Fri, 14 Apr 2017 16:10:27:  85000000 
INFO  @ Fri, 14 Apr 2017 16:10:29:  86000000 
INFO  @ Fri, 14 Apr 2017 16:10:30:  87000000 
INFO  @ Fri, 14 Apr 2017 16:10:32:  88000000 
INFO  @ Fri, 14 Apr 2017 16:10:33:  89000000 
INFO  @ Fri, 14 Apr 2017 16:10:35:  90000000 
INFO  @ Fri, 14 Apr 2017 16:10:36:  91000000 
INFO  @ Fri, 14 Apr 2017 16:10:38:  92000000 
INFO  @ Fri, 14 Apr 2017 16:10:39:  93000000 
INFO  @ Fri, 14 Apr 2017 16:10:41:  94000000 
INFO  @ Fri, 14 Apr 2017 16:10:42:  95000000 
INFO  @ Fri, 14 Apr 2017 16:10:44:  96000000 
INFO  @ Fri, 14 Apr 2017 16:10:45:  97000000 
INFO  @ Fri, 14 Apr 2017 16:10:47:  98000000 
INFO  @ Fri, 14 Apr 2017 16:10:48:  99000000 
INFO  @ Fri, 14 Apr 2017 16:10:56: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:10:56: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:10:56: #1  total tags in treatment: 127505544 
INFO  @ Fri, 14 Apr 2017 16:10:56: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:10:56: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:10:56: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:10:56: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:10:56: #2 Use 235 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:10:56: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:10:56: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:10:56: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:17:47: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:21:15: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:21:15: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:21:16: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:21:16: Done!

Num	5
ID	task.callpeak_macs2.macs2_g_b_rep1_pr1.line_155.id_14
Name	macs2 g/b rep1-pr1
Thread	thread_Root
PID	47062

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:04:42
End	2017-04-14 16:19:06
Elapsed	00:14:23
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 235 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
1385 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:05:05: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 235 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:05:05: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:05:07:  1000000 
INFO  @ Fri, 14 Apr 2017 16:05:09:  2000000 
INFO  @ Fri, 14 Apr 2017 16:05:11:  3000000 
INFO  @ Fri, 14 Apr 2017 16:05:12:  4000000 
INFO  @ Fri, 14 Apr 2017 16:05:14:  5000000 
INFO  @ Fri, 14 Apr 2017 16:05:16:  6000000 
INFO  @ Fri, 14 Apr 2017 16:05:17:  7000000 
INFO  @ Fri, 14 Apr 2017 16:05:19:  8000000 
INFO  @ Fri, 14 Apr 2017 16:05:21:  9000000 
INFO  @ Fri, 14 Apr 2017 16:05:22:  10000000 
INFO  @ Fri, 14 Apr 2017 16:05:24:  11000000 
INFO  @ Fri, 14 Apr 2017 16:05:26:  12000000 
INFO  @ Fri, 14 Apr 2017 16:05:28:  13000000 
INFO  @ Fri, 14 Apr 2017 16:05:30:  14000000 
INFO  @ Fri, 14 Apr 2017 16:05:32:  15000000 
INFO  @ Fri, 14 Apr 2017 16:05:33:  16000000 
INFO  @ Fri, 14 Apr 2017 16:05:35:  17000000 
INFO  @ Fri, 14 Apr 2017 16:05:37:  18000000 
INFO  @ Fri, 14 Apr 2017 16:05:39:  19000000 
INFO  @ Fri, 14 Apr 2017 16:05:41:  20000000 
INFO  @ Fri, 14 Apr 2017 16:05:42:  21000000 
INFO  @ Fri, 14 Apr 2017 16:05:44:  22000000 
INFO  @ Fri, 14 Apr 2017 16:05:46:  23000000 
INFO  @ Fri, 14 Apr 2017 16:05:48:  24000000 
INFO  @ Fri, 14 Apr 2017 16:05:50:  25000000 
INFO  @ Fri, 14 Apr 2017 16:05:51:  26000000 
INFO  @ Fri, 14 Apr 2017 16:05:53:  27000000 
INFO  @ Fri, 14 Apr 2017 16:05:55:  28000000 
INFO  @ Fri, 14 Apr 2017 16:05:57:  29000000 
INFO  @ Fri, 14 Apr 2017 16:05:59:  30000000 
INFO  @ Fri, 14 Apr 2017 16:06:01:  31000000 
INFO  @ Fri, 14 Apr 2017 16:06:03:  32000000 
INFO  @ Fri, 14 Apr 2017 16:06:04:  33000000 
INFO  @ Fri, 14 Apr 2017 16:06:06:  34000000 
INFO  @ Fri, 14 Apr 2017 16:06:08:  35000000 
INFO  @ Fri, 14 Apr 2017 16:06:10:  36000000 
INFO  @ Fri, 14 Apr 2017 16:06:12:  37000000 
INFO  @ Fri, 14 Apr 2017 16:06:14:  38000000 
INFO  @ Fri, 14 Apr 2017 16:06:15:  39000000 
INFO  @ Fri, 14 Apr 2017 16:06:17:  40000000 
INFO  @ Fri, 14 Apr 2017 16:06:19:  41000000 
INFO  @ Fri, 14 Apr 2017 16:06:21:  42000000 
INFO  @ Fri, 14 Apr 2017 16:06:22:  43000000 
INFO  @ Fri, 14 Apr 2017 16:06:24:  44000000 
INFO  @ Fri, 14 Apr 2017 16:06:26:  45000000 
INFO  @ Fri, 14 Apr 2017 16:06:27:  46000000 
INFO  @ Fri, 14 Apr 2017 16:06:29:  47000000 
INFO  @ Fri, 14 Apr 2017 16:06:31:  48000000 
INFO  @ Fri, 14 Apr 2017 16:06:32:  49000000 
INFO  @ Fri, 14 Apr 2017 16:06:34:  50000000 
INFO  @ Fri, 14 Apr 2017 16:06:36:  51000000 
INFO  @ Fri, 14 Apr 2017 16:06:38:  52000000 
INFO  @ Fri, 14 Apr 2017 16:06:40:  53000000 
INFO  @ Fri, 14 Apr 2017 16:06:41:  54000000 
INFO  @ Fri, 14 Apr 2017 16:06:43:  55000000 
INFO  @ Fri, 14 Apr 2017 16:06:45:  56000000 
INFO  @ Fri, 14 Apr 2017 16:06:47:  57000000 
INFO  @ Fri, 14 Apr 2017 16:06:48:  58000000 
INFO  @ Fri, 14 Apr 2017 16:06:50:  59000000 
INFO  @ Fri, 14 Apr 2017 16:06:52:  60000000 
INFO  @ Fri, 14 Apr 2017 16:06:54:  61000000 
INFO  @ Fri, 14 Apr 2017 16:06:55:  62000000 
INFO  @ Fri, 14 Apr 2017 16:06:57:  63000000 
INFO  @ Fri, 14 Apr 2017 16:07:04: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:07:06:  1000000 
INFO  @ Fri, 14 Apr 2017 16:07:07:  2000000 
INFO  @ Fri, 14 Apr 2017 16:07:09:  3000000 
INFO  @ Fri, 14 Apr 2017 16:07:10:  4000000 
INFO  @ Fri, 14 Apr 2017 16:07:12:  5000000 
INFO  @ Fri, 14 Apr 2017 16:07:14:  6000000 
INFO  @ Fri, 14 Apr 2017 16:07:16:  7000000 
INFO  @ Fri, 14 Apr 2017 16:07:18:  8000000 
INFO  @ Fri, 14 Apr 2017 16:07:19:  9000000 
INFO  @ Fri, 14 Apr 2017 16:07:21:  10000000 
INFO  @ Fri, 14 Apr 2017 16:07:23:  11000000 
INFO  @ Fri, 14 Apr 2017 16:07:25:  12000000 
INFO  @ Fri, 14 Apr 2017 16:07:27:  13000000 
INFO  @ Fri, 14 Apr 2017 16:07:29:  14000000 
INFO  @ Fri, 14 Apr 2017 16:07:30:  15000000 
INFO  @ Fri, 14 Apr 2017 16:07:32:  16000000 
INFO  @ Fri, 14 Apr 2017 16:07:34:  17000000 
INFO  @ Fri, 14 Apr 2017 16:07:36:  18000000 
INFO  @ Fri, 14 Apr 2017 16:07:37:  19000000 
INFO  @ Fri, 14 Apr 2017 16:07:39:  20000000 
INFO  @ Fri, 14 Apr 2017 16:07:41:  21000000 
INFO  @ Fri, 14 Apr 2017 16:07:42:  22000000 
INFO  @ Fri, 14 Apr 2017 16:07:44:  23000000 
INFO  @ Fri, 14 Apr 2017 16:07:46:  24000000 
INFO  @ Fri, 14 Apr 2017 16:07:47:  25000000 
INFO  @ Fri, 14 Apr 2017 16:07:49:  26000000 
INFO  @ Fri, 14 Apr 2017 16:07:51:  27000000 
INFO  @ Fri, 14 Apr 2017 16:07:53:  28000000 
INFO  @ Fri, 14 Apr 2017 16:07:55:  29000000 
INFO  @ Fri, 14 Apr 2017 16:07:57:  30000000 
INFO  @ Fri, 14 Apr 2017 16:07:58:  31000000 
INFO  @ Fri, 14 Apr 2017 16:08:00:  32000000 
INFO  @ Fri, 14 Apr 2017 16:08:02:  33000000 
INFO  @ Fri, 14 Apr 2017 16:08:04:  34000000 
INFO  @ Fri, 14 Apr 2017 16:08:06:  35000000 
INFO  @ Fri, 14 Apr 2017 16:08:07:  36000000 
INFO  @ Fri, 14 Apr 2017 16:08:09:  37000000 
INFO  @ Fri, 14 Apr 2017 16:08:10:  38000000 
INFO  @ Fri, 14 Apr 2017 16:08:11:  39000000 
INFO  @ Fri, 14 Apr 2017 16:08:13:  40000000 
INFO  @ Fri, 14 Apr 2017 16:08:14:  41000000 
INFO  @ Fri, 14 Apr 2017 16:08:16:  42000000 
INFO  @ Fri, 14 Apr 2017 16:08:17:  43000000 
INFO  @ Fri, 14 Apr 2017 16:08:19:  44000000 
INFO  @ Fri, 14 Apr 2017 16:08:20:  45000000 
INFO  @ Fri, 14 Apr 2017 16:08:22:  46000000 
INFO  @ Fri, 14 Apr 2017 16:08:23:  47000000 
INFO  @ Fri, 14 Apr 2017 16:08:25:  48000000 
INFO  @ Fri, 14 Apr 2017 16:08:26:  49000000 
INFO  @ Fri, 14 Apr 2017 16:08:28:  50000000 
INFO  @ Fri, 14 Apr 2017 16:08:29:  51000000 
INFO  @ Fri, 14 Apr 2017 16:08:31:  52000000 
INFO  @ Fri, 14 Apr 2017 16:08:32:  53000000 
INFO  @ Fri, 14 Apr 2017 16:08:33:  54000000 
INFO  @ Fri, 14 Apr 2017 16:08:35:  55000000 
INFO  @ Fri, 14 Apr 2017 16:08:36:  56000000 
INFO  @ Fri, 14 Apr 2017 16:08:38:  57000000 
INFO  @ Fri, 14 Apr 2017 16:08:39:  58000000 
INFO  @ Fri, 14 Apr 2017 16:08:41:  59000000 
INFO  @ Fri, 14 Apr 2017 16:08:42:  60000000 
INFO  @ Fri, 14 Apr 2017 16:08:44:  61000000 
INFO  @ Fri, 14 Apr 2017 16:08:45:  62000000 
INFO  @ Fri, 14 Apr 2017 16:08:47:  63000000 
INFO  @ Fri, 14 Apr 2017 16:08:48:  64000000 
INFO  @ Fri, 14 Apr 2017 16:08:50:  65000000 
INFO  @ Fri, 14 Apr 2017 16:08:51:  66000000 
INFO  @ Fri, 14 Apr 2017 16:08:53:  67000000 
INFO  @ Fri, 14 Apr 2017 16:08:54:  68000000 
INFO  @ Fri, 14 Apr 2017 16:08:56:  69000000 
INFO  @ Fri, 14 Apr 2017 16:08:57:  70000000 
INFO  @ Fri, 14 Apr 2017 16:08:58:  71000000 
INFO  @ Fri, 14 Apr 2017 16:09:00:  72000000 
INFO  @ Fri, 14 Apr 2017 16:09:01:  73000000 
INFO  @ Fri, 14 Apr 2017 16:09:03:  74000000 
INFO  @ Fri, 14 Apr 2017 16:09:04:  75000000 
INFO  @ Fri, 14 Apr 2017 16:09:06:  76000000 
INFO  @ Fri, 14 Apr 2017 16:09:07:  77000000 
INFO  @ Fri, 14 Apr 2017 16:09:09:  78000000 
INFO  @ Fri, 14 Apr 2017 16:09:10:  79000000 
INFO  @ Fri, 14 Apr 2017 16:09:12:  80000000 
INFO  @ Fri, 14 Apr 2017 16:09:13:  81000000 
INFO  @ Fri, 14 Apr 2017 16:09:15:  82000000 
INFO  @ Fri, 14 Apr 2017 16:09:16:  83000000 
INFO  @ Fri, 14 Apr 2017 16:09:18:  84000000 
INFO  @ Fri, 14 Apr 2017 16:09:19:  85000000 
INFO  @ Fri, 14 Apr 2017 16:09:20:  86000000 
INFO  @ Fri, 14 Apr 2017 16:09:22:  87000000 
INFO  @ Fri, 14 Apr 2017 16:09:23:  88000000 
INFO  @ Fri, 14 Apr 2017 16:09:25:  89000000 
INFO  @ Fri, 14 Apr 2017 16:09:26:  90000000 
INFO  @ Fri, 14 Apr 2017 16:09:28:  91000000 
INFO  @ Fri, 14 Apr 2017 16:09:29:  92000000 
INFO  @ Fri, 14 Apr 2017 16:09:31:  93000000 
INFO  @ Fri, 14 Apr 2017 16:09:32:  94000000 
INFO  @ Fri, 14 Apr 2017 16:09:34:  95000000 
INFO  @ Fri, 14 Apr 2017 16:09:35:  96000000 
INFO  @ Fri, 14 Apr 2017 16:09:37:  97000000 
INFO  @ Fri, 14 Apr 2017 16:09:38:  98000000 
INFO  @ Fri, 14 Apr 2017 16:09:40:  99000000 
INFO  @ Fri, 14 Apr 2017 16:09:48: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:09:48: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:09:48: #1  total tags in treatment: 63752772 
INFO  @ Fri, 14 Apr 2017 16:09:48: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:09:48: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:09:48: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:09:48: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:09:48: #2 Use 235 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:09:48: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:09:48: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:09:48: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:15:34: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:19:00: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:19:01: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:19:01: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF066ZSK.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:19:02: Done!

Num	6
ID	task.callpeak_macs2.macs2_g_b_rep1_pr2.line_155.id_15
Name	macs2 g/b rep1-pr2
Thread	thread_Root
PID	47063

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:19:08
End	2017-04-14 16:33:10
Elapsed	00:14:02
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 235 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
34080 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:19:35: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 235 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:19:35: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:19:35: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:19:36:  1000000 
INFO  @ Fri, 14 Apr 2017 16:19:38:  2000000 
INFO  @ Fri, 14 Apr 2017 16:19:40:  3000000 
INFO  @ Fri, 14 Apr 2017 16:19:42:  4000000 
INFO  @ Fri, 14 Apr 2017 16:19:44:  5000000 
INFO  @ Fri, 14 Apr 2017 16:19:45:  6000000 
INFO  @ Fri, 14 Apr 2017 16:19:47:  7000000 
INFO  @ Fri, 14 Apr 2017 16:19:48:  8000000 
INFO  @ Fri, 14 Apr 2017 16:19:50:  9000000 
INFO  @ Fri, 14 Apr 2017 16:19:51:  10000000 
INFO  @ Fri, 14 Apr 2017 16:19:53:  11000000 
INFO  @ Fri, 14 Apr 2017 16:19:54:  12000000 
INFO  @ Fri, 14 Apr 2017 16:19:56:  13000000 
INFO  @ Fri, 14 Apr 2017 16:19:57:  14000000 
INFO  @ Fri, 14 Apr 2017 16:19:59:  15000000 
INFO  @ Fri, 14 Apr 2017 16:20:00:  16000000 
INFO  @ Fri, 14 Apr 2017 16:20:02:  17000000 
INFO  @ Fri, 14 Apr 2017 16:20:03:  18000000 
INFO  @ Fri, 14 Apr 2017 16:20:05:  19000000 
INFO  @ Fri, 14 Apr 2017 16:20:06:  20000000 
INFO  @ Fri, 14 Apr 2017 16:20:08:  21000000 
INFO  @ Fri, 14 Apr 2017 16:20:09:  22000000 
INFO  @ Fri, 14 Apr 2017 16:20:11:  23000000 
INFO  @ Fri, 14 Apr 2017 16:20:12:  24000000 
INFO  @ Fri, 14 Apr 2017 16:20:14:  25000000 
INFO  @ Fri, 14 Apr 2017 16:20:15:  26000000 
INFO  @ Fri, 14 Apr 2017 16:20:17:  27000000 
INFO  @ Fri, 14 Apr 2017 16:20:18:  28000000 
INFO  @ Fri, 14 Apr 2017 16:20:20:  29000000 
INFO  @ Fri, 14 Apr 2017 16:20:21:  30000000 
INFO  @ Fri, 14 Apr 2017 16:20:23:  31000000 
INFO  @ Fri, 14 Apr 2017 16:20:24:  32000000 
INFO  @ Fri, 14 Apr 2017 16:20:26:  33000000 
INFO  @ Fri, 14 Apr 2017 16:20:27:  34000000 
INFO  @ Fri, 14 Apr 2017 16:20:29:  35000000 
INFO  @ Fri, 14 Apr 2017 16:20:30:  36000000 
INFO  @ Fri, 14 Apr 2017 16:20:32:  37000000 
INFO  @ Fri, 14 Apr 2017 16:20:33:  38000000 
INFO  @ Fri, 14 Apr 2017 16:20:35:  39000000 
INFO  @ Fri, 14 Apr 2017 16:20:36:  40000000 
INFO  @ Fri, 14 Apr 2017 16:20:37:  41000000 
INFO  @ Fri, 14 Apr 2017 16:20:39:  42000000 
INFO  @ Fri, 14 Apr 2017 16:20:40:  43000000 
INFO  @ Fri, 14 Apr 2017 16:20:42:  44000000 
INFO  @ Fri, 14 Apr 2017 16:20:43:  45000000 
INFO  @ Fri, 14 Apr 2017 16:20:45:  46000000 
INFO  @ Fri, 14 Apr 2017 16:20:46:  47000000 
INFO  @ Fri, 14 Apr 2017 16:20:48:  48000000 
INFO  @ Fri, 14 Apr 2017 16:20:49:  49000000 
INFO  @ Fri, 14 Apr 2017 16:20:51:  50000000 
INFO  @ Fri, 14 Apr 2017 16:20:52:  51000000 
INFO  @ Fri, 14 Apr 2017 16:20:54:  52000000 
INFO  @ Fri, 14 Apr 2017 16:20:55:  53000000 
INFO  @ Fri, 14 Apr 2017 16:20:57:  54000000 
INFO  @ Fri, 14 Apr 2017 16:20:58:  55000000 
INFO  @ Fri, 14 Apr 2017 16:21:00:  56000000 
INFO  @ Fri, 14 Apr 2017 16:21:01:  57000000 
INFO  @ Fri, 14 Apr 2017 16:21:03:  58000000 
INFO  @ Fri, 14 Apr 2017 16:21:04:  59000000 
INFO  @ Fri, 14 Apr 2017 16:21:06:  60000000 
INFO  @ Fri, 14 Apr 2017 16:21:07:  61000000 
INFO  @ Fri, 14 Apr 2017 16:21:09:  62000000 
INFO  @ Fri, 14 Apr 2017 16:21:10:  63000000 
INFO  @ Fri, 14 Apr 2017 16:21:16: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:21:17:  1000000 
INFO  @ Fri, 14 Apr 2017 16:21:19:  2000000 
INFO  @ Fri, 14 Apr 2017 16:21:20:  3000000 
INFO  @ Fri, 14 Apr 2017 16:21:21:  4000000 
INFO  @ Fri, 14 Apr 2017 16:21:23:  5000000 
INFO  @ Fri, 14 Apr 2017 16:21:24:  6000000 
INFO  @ Fri, 14 Apr 2017 16:21:26:  7000000 
INFO  @ Fri, 14 Apr 2017 16:21:27:  8000000 
INFO  @ Fri, 14 Apr 2017 16:21:29:  9000000 
INFO  @ Fri, 14 Apr 2017 16:21:30:  10000000 
INFO  @ Fri, 14 Apr 2017 16:21:32:  11000000 
INFO  @ Fri, 14 Apr 2017 16:21:33:  12000000 
INFO  @ Fri, 14 Apr 2017 16:21:35:  13000000 
INFO  @ Fri, 14 Apr 2017 16:21:36:  14000000 
INFO  @ Fri, 14 Apr 2017 16:21:38:  15000000 
INFO  @ Fri, 14 Apr 2017 16:21:39:  16000000 
INFO  @ Fri, 14 Apr 2017 16:21:41:  17000000 
INFO  @ Fri, 14 Apr 2017 16:21:42:  18000000 
INFO  @ Fri, 14 Apr 2017 16:21:43:  19000000 
INFO  @ Fri, 14 Apr 2017 16:21:45:  20000000 
INFO  @ Fri, 14 Apr 2017 16:21:46:  21000000 
INFO  @ Fri, 14 Apr 2017 16:21:48:  22000000 
INFO  @ Fri, 14 Apr 2017 16:21:49:  23000000 
INFO  @ Fri, 14 Apr 2017 16:21:51:  24000000 
INFO  @ Fri, 14 Apr 2017 16:21:52:  25000000 
INFO  @ Fri, 14 Apr 2017 16:21:54:  26000000 
INFO  @ Fri, 14 Apr 2017 16:21:55:  27000000 
INFO  @ Fri, 14 Apr 2017 16:21:57:  28000000 
INFO  @ Fri, 14 Apr 2017 16:21:58:  29000000 
INFO  @ Fri, 14 Apr 2017 16:22:00:  30000000 
INFO  @ Fri, 14 Apr 2017 16:22:01:  31000000 
INFO  @ Fri, 14 Apr 2017 16:22:03:  32000000 
INFO  @ Fri, 14 Apr 2017 16:22:04:  33000000 
INFO  @ Fri, 14 Apr 2017 16:22:05:  34000000 
INFO  @ Fri, 14 Apr 2017 16:22:07:  35000000 
INFO  @ Fri, 14 Apr 2017 16:22:08:  36000000 
INFO  @ Fri, 14 Apr 2017 16:22:10:  37000000 
INFO  @ Fri, 14 Apr 2017 16:22:11:  38000000 
INFO  @ Fri, 14 Apr 2017 16:22:13:  39000000 
INFO  @ Fri, 14 Apr 2017 16:22:14:  40000000 
INFO  @ Fri, 14 Apr 2017 16:22:16:  41000000 
INFO  @ Fri, 14 Apr 2017 16:22:17:  42000000 
INFO  @ Fri, 14 Apr 2017 16:22:19:  43000000 
INFO  @ Fri, 14 Apr 2017 16:22:20:  44000000 
INFO  @ Fri, 14 Apr 2017 16:22:22:  45000000 
INFO  @ Fri, 14 Apr 2017 16:22:23:  46000000 
INFO  @ Fri, 14 Apr 2017 16:22:25:  47000000 
INFO  @ Fri, 14 Apr 2017 16:22:26:  48000000 
INFO  @ Fri, 14 Apr 2017 16:22:28:  49000000 
INFO  @ Fri, 14 Apr 2017 16:22:29:  50000000 
INFO  @ Fri, 14 Apr 2017 16:22:31:  51000000 
INFO  @ Fri, 14 Apr 2017 16:22:32:  52000000 
INFO  @ Fri, 14 Apr 2017 16:22:34:  53000000 
INFO  @ Fri, 14 Apr 2017 16:22:35:  54000000 
INFO  @ Fri, 14 Apr 2017 16:22:37:  55000000 
INFO  @ Fri, 14 Apr 2017 16:22:38:  56000000 
INFO  @ Fri, 14 Apr 2017 16:22:40:  57000000 
INFO  @ Fri, 14 Apr 2017 16:22:41:  58000000 
INFO  @ Fri, 14 Apr 2017 16:22:43:  59000000 
INFO  @ Fri, 14 Apr 2017 16:22:44:  60000000 
INFO  @ Fri, 14 Apr 2017 16:22:46:  61000000 
INFO  @ Fri, 14 Apr 2017 16:22:47:  62000000 
INFO  @ Fri, 14 Apr 2017 16:22:49:  63000000 
INFO  @ Fri, 14 Apr 2017 16:22:50:  64000000 
INFO  @ Fri, 14 Apr 2017 16:22:52:  65000000 
INFO  @ Fri, 14 Apr 2017 16:22:53:  66000000 
INFO  @ Fri, 14 Apr 2017 16:22:54:  67000000 
INFO  @ Fri, 14 Apr 2017 16:22:56:  68000000 
INFO  @ Fri, 14 Apr 2017 16:22:57:  69000000 
INFO  @ Fri, 14 Apr 2017 16:22:59:  70000000 
INFO  @ Fri, 14 Apr 2017 16:23:00:  71000000 
INFO  @ Fri, 14 Apr 2017 16:23:02:  72000000 
INFO  @ Fri, 14 Apr 2017 16:23:03:  73000000 
INFO  @ Fri, 14 Apr 2017 16:23:05:  74000000 
INFO  @ Fri, 14 Apr 2017 16:23:06:  75000000 
INFO  @ Fri, 14 Apr 2017 16:23:08:  76000000 
INFO  @ Fri, 14 Apr 2017 16:23:09:  77000000 
INFO  @ Fri, 14 Apr 2017 16:23:11:  78000000 
INFO  @ Fri, 14 Apr 2017 16:23:12:  79000000 
INFO  @ Fri, 14 Apr 2017 16:23:14:  80000000 
INFO  @ Fri, 14 Apr 2017 16:23:15:  81000000 
INFO  @ Fri, 14 Apr 2017 16:23:17:  82000000 
INFO  @ Fri, 14 Apr 2017 16:23:18:  83000000 
INFO  @ Fri, 14 Apr 2017 16:23:20:  84000000 
INFO  @ Fri, 14 Apr 2017 16:23:21:  85000000 
INFO  @ Fri, 14 Apr 2017 16:23:23:  86000000 
INFO  @ Fri, 14 Apr 2017 16:23:24:  87000000 
INFO  @ Fri, 14 Apr 2017 16:23:26:  88000000 
INFO  @ Fri, 14 Apr 2017 16:23:27:  89000000 
INFO  @ Fri, 14 Apr 2017 16:23:29:  90000000 
INFO  @ Fri, 14 Apr 2017 16:23:30:  91000000 
INFO  @ Fri, 14 Apr 2017 16:23:32:  92000000 
INFO  @ Fri, 14 Apr 2017 16:23:33:  93000000 
INFO  @ Fri, 14 Apr 2017 16:23:34:  94000000 
INFO  @ Fri, 14 Apr 2017 16:23:36:  95000000 
INFO  @ Fri, 14 Apr 2017 16:23:37:  96000000 
INFO  @ Fri, 14 Apr 2017 16:23:39:  97000000 
INFO  @ Fri, 14 Apr 2017 16:23:40:  98000000 
INFO  @ Fri, 14 Apr 2017 16:23:42:  99000000 
INFO  @ Fri, 14 Apr 2017 16:23:50: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:23:50: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:23:50: #1  total tags in treatment: 63752772 
INFO  @ Fri, 14 Apr 2017 16:23:50: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:23:50: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:23:50: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:23:50: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:23:50: #2 Use 235 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:23:50: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:23:50: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:23:50: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:29:39: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:33:04: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:33:05: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:33:06: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF066ZSK.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:33:06: Done!

Num	7
ID	task.callpeak_macs2.macs2_g_b_rep2.line_155.id_16
Name	macs2 g/b rep2
Thread	thread_Root
PID	47064

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:21:23
End	2017-04-14 16:37:08
Elapsed	00:15:45
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep2/ENCFF241VRG.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep2/ENCFF241VRG.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 240 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
39042 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:21:47: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep2/ENCFF241VRG.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 240 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep2/ENCFF241VRG.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:21:47: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:21:47: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:21:49:  1000000 
INFO  @ Fri, 14 Apr 2017 16:21:51:  2000000 
INFO  @ Fri, 14 Apr 2017 16:21:52:  3000000 
INFO  @ Fri, 14 Apr 2017 16:21:54:  4000000 
INFO  @ Fri, 14 Apr 2017 16:21:56:  5000000 
INFO  @ Fri, 14 Apr 2017 16:21:57:  6000000 
INFO  @ Fri, 14 Apr 2017 16:21:59:  7000000 
INFO  @ Fri, 14 Apr 2017 16:22:00:  8000000 
INFO  @ Fri, 14 Apr 2017 16:22:02:  9000000 
INFO  @ Fri, 14 Apr 2017 16:22:04:  10000000 
INFO  @ Fri, 14 Apr 2017 16:22:06:  11000000 
INFO  @ Fri, 14 Apr 2017 16:22:07:  12000000 
INFO  @ Fri, 14 Apr 2017 16:22:09:  13000000 
INFO  @ Fri, 14 Apr 2017 16:22:10:  14000000 
INFO  @ Fri, 14 Apr 2017 16:22:12:  15000000 
INFO  @ Fri, 14 Apr 2017 16:22:13:  16000000 
INFO  @ Fri, 14 Apr 2017 16:22:15:  17000000 
INFO  @ Fri, 14 Apr 2017 16:22:17:  18000000 
INFO  @ Fri, 14 Apr 2017 16:22:18:  19000000 
INFO  @ Fri, 14 Apr 2017 16:22:20:  20000000 
INFO  @ Fri, 14 Apr 2017 16:22:22:  21000000 
INFO  @ Fri, 14 Apr 2017 16:22:23:  22000000 
INFO  @ Fri, 14 Apr 2017 16:22:25:  23000000 
INFO  @ Fri, 14 Apr 2017 16:22:26:  24000000 
INFO  @ Fri, 14 Apr 2017 16:22:28:  25000000 
INFO  @ Fri, 14 Apr 2017 16:22:29:  26000000 
INFO  @ Fri, 14 Apr 2017 16:22:31:  27000000 
INFO  @ Fri, 14 Apr 2017 16:22:33:  28000000 
INFO  @ Fri, 14 Apr 2017 16:22:34:  29000000 
INFO  @ Fri, 14 Apr 2017 16:22:36:  30000000 
INFO  @ Fri, 14 Apr 2017 16:22:38:  31000000 
INFO  @ Fri, 14 Apr 2017 16:22:39:  32000000 
INFO  @ Fri, 14 Apr 2017 16:22:41:  33000000 
INFO  @ Fri, 14 Apr 2017 16:22:42:  34000000 
INFO  @ Fri, 14 Apr 2017 16:22:44:  35000000 
INFO  @ Fri, 14 Apr 2017 16:22:46:  36000000 
INFO  @ Fri, 14 Apr 2017 16:22:47:  37000000 
INFO  @ Fri, 14 Apr 2017 16:22:49:  38000000 
INFO  @ Fri, 14 Apr 2017 16:22:50:  39000000 
INFO  @ Fri, 14 Apr 2017 16:22:52:  40000000 
INFO  @ Fri, 14 Apr 2017 16:22:54:  41000000 
INFO  @ Fri, 14 Apr 2017 16:22:55:  42000000 
INFO  @ Fri, 14 Apr 2017 16:22:57:  43000000 
INFO  @ Fri, 14 Apr 2017 16:22:59:  44000000 
INFO  @ Fri, 14 Apr 2017 16:23:00:  45000000 
INFO  @ Fri, 14 Apr 2017 16:23:02:  46000000 
INFO  @ Fri, 14 Apr 2017 16:23:03:  47000000 
INFO  @ Fri, 14 Apr 2017 16:23:05:  48000000 
INFO  @ Fri, 14 Apr 2017 16:23:06:  49000000 
INFO  @ Fri, 14 Apr 2017 16:23:08:  50000000 
INFO  @ Fri, 14 Apr 2017 16:23:09:  51000000 
INFO  @ Fri, 14 Apr 2017 16:23:11:  52000000 
INFO  @ Fri, 14 Apr 2017 16:23:12:  53000000 
INFO  @ Fri, 14 Apr 2017 16:23:14:  54000000 
INFO  @ Fri, 14 Apr 2017 16:23:15:  55000000 
INFO  @ Fri, 14 Apr 2017 16:23:17:  56000000 
INFO  @ Fri, 14 Apr 2017 16:23:18:  57000000 
INFO  @ Fri, 14 Apr 2017 16:23:20:  58000000 
INFO  @ Fri, 14 Apr 2017 16:23:21:  59000000 
INFO  @ Fri, 14 Apr 2017 16:23:23:  60000000 
INFO  @ Fri, 14 Apr 2017 16:23:24:  61000000 
INFO  @ Fri, 14 Apr 2017 16:23:26:  62000000 
INFO  @ Fri, 14 Apr 2017 16:23:27:  63000000 
INFO  @ Fri, 14 Apr 2017 16:23:29:  64000000 
INFO  @ Fri, 14 Apr 2017 16:23:30:  65000000 
INFO  @ Fri, 14 Apr 2017 16:23:32:  66000000 
INFO  @ Fri, 14 Apr 2017 16:23:33:  67000000 
INFO  @ Fri, 14 Apr 2017 16:23:35:  68000000 
INFO  @ Fri, 14 Apr 2017 16:23:36:  69000000 
INFO  @ Fri, 14 Apr 2017 16:23:38:  70000000 
INFO  @ Fri, 14 Apr 2017 16:23:40:  71000000 
INFO  @ Fri, 14 Apr 2017 16:23:42:  72000000 
INFO  @ Fri, 14 Apr 2017 16:23:43:  73000000 
INFO  @ Fri, 14 Apr 2017 16:23:45:  74000000 
INFO  @ Fri, 14 Apr 2017 16:23:46:  75000000 
INFO  @ Fri, 14 Apr 2017 16:23:48:  76000000 
INFO  @ Fri, 14 Apr 2017 16:23:49:  77000000 
INFO  @ Fri, 14 Apr 2017 16:23:51:  78000000 
INFO  @ Fri, 14 Apr 2017 16:23:52:  79000000 
INFO  @ Fri, 14 Apr 2017 16:23:54:  80000000 
INFO  @ Fri, 14 Apr 2017 16:23:55:  81000000 
INFO  @ Fri, 14 Apr 2017 16:23:57:  82000000 
INFO  @ Fri, 14 Apr 2017 16:23:59:  83000000 
INFO  @ Fri, 14 Apr 2017 16:24:01:  84000000 
INFO  @ Fri, 14 Apr 2017 16:24:02:  85000000 
INFO  @ Fri, 14 Apr 2017 16:24:04:  86000000 
INFO  @ Fri, 14 Apr 2017 16:24:06:  87000000 
INFO  @ Fri, 14 Apr 2017 16:24:08:  88000000 
INFO  @ Fri, 14 Apr 2017 16:24:10:  89000000 
INFO  @ Fri, 14 Apr 2017 16:24:11:  90000000 
INFO  @ Fri, 14 Apr 2017 16:24:13:  91000000 
INFO  @ Fri, 14 Apr 2017 16:24:15:  92000000 
INFO  @ Fri, 14 Apr 2017 16:24:22: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:24:23:  1000000 
INFO  @ Fri, 14 Apr 2017 16:24:25:  2000000 
INFO  @ Fri, 14 Apr 2017 16:24:26:  3000000 
INFO  @ Fri, 14 Apr 2017 16:24:28:  4000000 
INFO  @ Fri, 14 Apr 2017 16:24:30:  5000000 
INFO  @ Fri, 14 Apr 2017 16:24:31:  6000000 
INFO  @ Fri, 14 Apr 2017 16:24:33:  7000000 
INFO  @ Fri, 14 Apr 2017 16:24:35:  8000000 
INFO  @ Fri, 14 Apr 2017 16:24:36:  9000000 
INFO  @ Fri, 14 Apr 2017 16:24:38:  10000000 
INFO  @ Fri, 14 Apr 2017 16:24:39:  11000000 
INFO  @ Fri, 14 Apr 2017 16:24:41:  12000000 
INFO  @ Fri, 14 Apr 2017 16:24:42:  13000000 
INFO  @ Fri, 14 Apr 2017 16:24:44:  14000000 
INFO  @ Fri, 14 Apr 2017 16:24:45:  15000000 
INFO  @ Fri, 14 Apr 2017 16:24:47:  16000000 
INFO  @ Fri, 14 Apr 2017 16:24:48:  17000000 
INFO  @ Fri, 14 Apr 2017 16:24:50:  18000000 
INFO  @ Fri, 14 Apr 2017 16:24:52:  19000000 
INFO  @ Fri, 14 Apr 2017 16:24:53:  20000000 
INFO  @ Fri, 14 Apr 2017 16:24:55:  21000000 
INFO  @ Fri, 14 Apr 2017 16:24:56:  22000000 
INFO  @ Fri, 14 Apr 2017 16:24:58:  23000000 
INFO  @ Fri, 14 Apr 2017 16:24:59:  24000000 
INFO  @ Fri, 14 Apr 2017 16:25:01:  25000000 
INFO  @ Fri, 14 Apr 2017 16:25:02:  26000000 
INFO  @ Fri, 14 Apr 2017 16:25:04:  27000000 
INFO  @ Fri, 14 Apr 2017 16:25:05:  28000000 
INFO  @ Fri, 14 Apr 2017 16:25:07:  29000000 
INFO  @ Fri, 14 Apr 2017 16:25:08:  30000000 
INFO  @ Fri, 14 Apr 2017 16:25:10:  31000000 
INFO  @ Fri, 14 Apr 2017 16:25:11:  32000000 
INFO  @ Fri, 14 Apr 2017 16:25:13:  33000000 
INFO  @ Fri, 14 Apr 2017 16:25:14:  34000000 
INFO  @ Fri, 14 Apr 2017 16:25:15:  35000000 
INFO  @ Fri, 14 Apr 2017 16:25:17:  36000000 
INFO  @ Fri, 14 Apr 2017 16:25:18:  37000000 
INFO  @ Fri, 14 Apr 2017 16:25:20:  38000000 
INFO  @ Fri, 14 Apr 2017 16:25:22:  39000000 
INFO  @ Fri, 14 Apr 2017 16:25:23:  40000000 
INFO  @ Fri, 14 Apr 2017 16:25:25:  41000000 
INFO  @ Fri, 14 Apr 2017 16:25:26:  42000000 
INFO  @ Fri, 14 Apr 2017 16:25:28:  43000000 
INFO  @ Fri, 14 Apr 2017 16:25:29:  44000000 
INFO  @ Fri, 14 Apr 2017 16:25:31:  45000000 
INFO  @ Fri, 14 Apr 2017 16:25:32:  46000000 
INFO  @ Fri, 14 Apr 2017 16:25:34:  47000000 
INFO  @ Fri, 14 Apr 2017 16:25:35:  48000000 
INFO  @ Fri, 14 Apr 2017 16:25:37:  49000000 
INFO  @ Fri, 14 Apr 2017 16:25:38:  50000000 
INFO  @ Fri, 14 Apr 2017 16:25:40:  51000000 
INFO  @ Fri, 14 Apr 2017 16:25:41:  52000000 
INFO  @ Fri, 14 Apr 2017 16:25:43:  53000000 
INFO  @ Fri, 14 Apr 2017 16:25:44:  54000000 
INFO  @ Fri, 14 Apr 2017 16:25:46:  55000000 
INFO  @ Fri, 14 Apr 2017 16:25:47:  56000000 
INFO  @ Fri, 14 Apr 2017 16:25:49:  57000000 
INFO  @ Fri, 14 Apr 2017 16:25:50:  58000000 
INFO  @ Fri, 14 Apr 2017 16:25:52:  59000000 
INFO  @ Fri, 14 Apr 2017 16:25:54:  60000000 
INFO  @ Fri, 14 Apr 2017 16:25:55:  61000000 
INFO  @ Fri, 14 Apr 2017 16:25:57:  62000000 
INFO  @ Fri, 14 Apr 2017 16:25:59:  63000000 
INFO  @ Fri, 14 Apr 2017 16:26:00:  64000000 
INFO  @ Fri, 14 Apr 2017 16:26:01:  65000000 
INFO  @ Fri, 14 Apr 2017 16:26:03:  66000000 
INFO  @ Fri, 14 Apr 2017 16:26:04:  67000000 
INFO  @ Fri, 14 Apr 2017 16:26:06:  68000000 
INFO  @ Fri, 14 Apr 2017 16:26:07:  69000000 
INFO  @ Fri, 14 Apr 2017 16:26:09:  70000000 
INFO  @ Fri, 14 Apr 2017 16:26:10:  71000000 
INFO  @ Fri, 14 Apr 2017 16:26:12:  72000000 
INFO  @ Fri, 14 Apr 2017 16:26:13:  73000000 
INFO  @ Fri, 14 Apr 2017 16:26:15:  74000000 
INFO  @ Fri, 14 Apr 2017 16:26:16:  75000000 
INFO  @ Fri, 14 Apr 2017 16:26:18:  76000000 
INFO  @ Fri, 14 Apr 2017 16:26:19:  77000000 
INFO  @ Fri, 14 Apr 2017 16:26:21:  78000000 
INFO  @ Fri, 14 Apr 2017 16:26:22:  79000000 
INFO  @ Fri, 14 Apr 2017 16:26:24:  80000000 
INFO  @ Fri, 14 Apr 2017 16:26:25:  81000000 
INFO  @ Fri, 14 Apr 2017 16:26:26:  82000000 
INFO  @ Fri, 14 Apr 2017 16:26:28:  83000000 
INFO  @ Fri, 14 Apr 2017 16:26:29:  84000000 
INFO  @ Fri, 14 Apr 2017 16:26:31:  85000000 
INFO  @ Fri, 14 Apr 2017 16:26:32:  86000000 
INFO  @ Fri, 14 Apr 2017 16:26:34:  87000000 
INFO  @ Fri, 14 Apr 2017 16:26:35:  88000000 
INFO  @ Fri, 14 Apr 2017 16:26:37:  89000000 
INFO  @ Fri, 14 Apr 2017 16:26:38:  90000000 
INFO  @ Fri, 14 Apr 2017 16:26:40:  91000000 
INFO  @ Fri, 14 Apr 2017 16:26:41:  92000000 
INFO  @ Fri, 14 Apr 2017 16:26:43:  93000000 
INFO  @ Fri, 14 Apr 2017 16:26:44:  94000000 
INFO  @ Fri, 14 Apr 2017 16:26:46:  95000000 
INFO  @ Fri, 14 Apr 2017 16:26:47:  96000000 
INFO  @ Fri, 14 Apr 2017 16:26:49:  97000000 
INFO  @ Fri, 14 Apr 2017 16:26:50:  98000000 
INFO  @ Fri, 14 Apr 2017 16:26:51:  99000000 
INFO  @ Fri, 14 Apr 2017 16:27:00: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:27:00: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:27:00: #1  total tags in treatment: 92229774 
INFO  @ Fri, 14 Apr 2017 16:27:00: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:27:00: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:27:00: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:27:00: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:27:00: #2 Use 240 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:27:00: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:27:00: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:27:00: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:33:16: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:37:04: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:37:04: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:37:05: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:37:05: Done!

Num	8
ID	task.callpeak_macs2.macs2_g_b_rep2_pr1.line_155.id_17
Name	macs2 g/b rep2-pr1
Thread	thread_Root
PID	47065

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:21:55
End	2017-04-14 16:34:46
Elapsed	00:12:50
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 240 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
40255 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:22:16: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 240 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:22:16: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:22:16: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:22:18:  1000000 
INFO  @ Fri, 14 Apr 2017 16:22:19:  2000000 
INFO  @ Fri, 14 Apr 2017 16:22:21:  3000000 
INFO  @ Fri, 14 Apr 2017 16:22:23:  4000000 
INFO  @ Fri, 14 Apr 2017 16:22:24:  5000000 
INFO  @ Fri, 14 Apr 2017 16:22:26:  6000000 
INFO  @ Fri, 14 Apr 2017 16:22:27:  7000000 
INFO  @ Fri, 14 Apr 2017 16:22:29:  8000000 
INFO  @ Fri, 14 Apr 2017 16:22:30:  9000000 
INFO  @ Fri, 14 Apr 2017 16:22:32:  10000000 
INFO  @ Fri, 14 Apr 2017 16:22:33:  11000000 
INFO  @ Fri, 14 Apr 2017 16:22:35:  12000000 
INFO  @ Fri, 14 Apr 2017 16:22:36:  13000000 
INFO  @ Fri, 14 Apr 2017 16:22:38:  14000000 
INFO  @ Fri, 14 Apr 2017 16:22:39:  15000000 
INFO  @ Fri, 14 Apr 2017 16:22:41:  16000000 
INFO  @ Fri, 14 Apr 2017 16:22:42:  17000000 
INFO  @ Fri, 14 Apr 2017 16:22:44:  18000000 
INFO  @ Fri, 14 Apr 2017 16:22:45:  19000000 
INFO  @ Fri, 14 Apr 2017 16:22:47:  20000000 
INFO  @ Fri, 14 Apr 2017 16:22:48:  21000000 
INFO  @ Fri, 14 Apr 2017 16:22:50:  22000000 
INFO  @ Fri, 14 Apr 2017 16:22:51:  23000000 
INFO  @ Fri, 14 Apr 2017 16:22:53:  24000000 
INFO  @ Fri, 14 Apr 2017 16:22:54:  25000000 
INFO  @ Fri, 14 Apr 2017 16:22:56:  26000000 
INFO  @ Fri, 14 Apr 2017 16:22:57:  27000000 
INFO  @ Fri, 14 Apr 2017 16:22:59:  28000000 
INFO  @ Fri, 14 Apr 2017 16:23:00:  29000000 
INFO  @ Fri, 14 Apr 2017 16:23:02:  30000000 
INFO  @ Fri, 14 Apr 2017 16:23:03:  31000000 
INFO  @ Fri, 14 Apr 2017 16:23:05:  32000000 
INFO  @ Fri, 14 Apr 2017 16:23:06:  33000000 
INFO  @ Fri, 14 Apr 2017 16:23:08:  34000000 
INFO  @ Fri, 14 Apr 2017 16:23:09:  35000000 
INFO  @ Fri, 14 Apr 2017 16:23:11:  36000000 
INFO  @ Fri, 14 Apr 2017 16:23:12:  37000000 
INFO  @ Fri, 14 Apr 2017 16:23:14:  38000000 
INFO  @ Fri, 14 Apr 2017 16:23:15:  39000000 
INFO  @ Fri, 14 Apr 2017 16:23:17:  40000000 
INFO  @ Fri, 14 Apr 2017 16:23:18:  41000000 
INFO  @ Fri, 14 Apr 2017 16:23:20:  42000000 
INFO  @ Fri, 14 Apr 2017 16:23:21:  43000000 
INFO  @ Fri, 14 Apr 2017 16:23:23:  44000000 
INFO  @ Fri, 14 Apr 2017 16:23:24:  45000000 
INFO  @ Fri, 14 Apr 2017 16:23:25:  46000000 
INFO  @ Fri, 14 Apr 2017 16:23:29: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:23:30:  1000000 
INFO  @ Fri, 14 Apr 2017 16:23:32:  2000000 
INFO  @ Fri, 14 Apr 2017 16:23:33:  3000000 
INFO  @ Fri, 14 Apr 2017 16:23:35:  4000000 
INFO  @ Fri, 14 Apr 2017 16:23:36:  5000000 
INFO  @ Fri, 14 Apr 2017 16:23:37:  6000000 
INFO  @ Fri, 14 Apr 2017 16:23:39:  7000000 
INFO  @ Fri, 14 Apr 2017 16:23:40:  8000000 
INFO  @ Fri, 14 Apr 2017 16:23:42:  9000000 
INFO  @ Fri, 14 Apr 2017 16:23:43:  10000000 
INFO  @ Fri, 14 Apr 2017 16:23:45:  11000000 
INFO  @ Fri, 14 Apr 2017 16:23:46:  12000000 
INFO  @ Fri, 14 Apr 2017 16:23:48:  13000000 
INFO  @ Fri, 14 Apr 2017 16:23:49:  14000000 
INFO  @ Fri, 14 Apr 2017 16:23:51:  15000000 
INFO  @ Fri, 14 Apr 2017 16:23:52:  16000000 
INFO  @ Fri, 14 Apr 2017 16:23:54:  17000000 
INFO  @ Fri, 14 Apr 2017 16:23:55:  18000000 
INFO  @ Fri, 14 Apr 2017 16:23:57:  19000000 
INFO  @ Fri, 14 Apr 2017 16:23:58:  20000000 
INFO  @ Fri, 14 Apr 2017 16:24:00:  21000000 
INFO  @ Fri, 14 Apr 2017 16:24:01:  22000000 
INFO  @ Fri, 14 Apr 2017 16:24:02:  23000000 
INFO  @ Fri, 14 Apr 2017 16:24:04:  24000000 
INFO  @ Fri, 14 Apr 2017 16:24:05:  25000000 
INFO  @ Fri, 14 Apr 2017 16:24:07:  26000000 
INFO  @ Fri, 14 Apr 2017 16:24:08:  27000000 
INFO  @ Fri, 14 Apr 2017 16:24:10:  28000000 
INFO  @ Fri, 14 Apr 2017 16:24:11:  29000000 
INFO  @ Fri, 14 Apr 2017 16:24:13:  30000000 
INFO  @ Fri, 14 Apr 2017 16:24:14:  31000000 
INFO  @ Fri, 14 Apr 2017 16:24:16:  32000000 
INFO  @ Fri, 14 Apr 2017 16:24:17:  33000000 
INFO  @ Fri, 14 Apr 2017 16:24:19:  34000000 
INFO  @ Fri, 14 Apr 2017 16:24:20:  35000000 
INFO  @ Fri, 14 Apr 2017 16:24:22:  36000000 
INFO  @ Fri, 14 Apr 2017 16:24:23:  37000000 
INFO  @ Fri, 14 Apr 2017 16:24:24:  38000000 
INFO  @ Fri, 14 Apr 2017 16:24:26:  39000000 
INFO  @ Fri, 14 Apr 2017 16:24:27:  40000000 
INFO  @ Fri, 14 Apr 2017 16:24:29:  41000000 
INFO  @ Fri, 14 Apr 2017 16:24:30:  42000000 
INFO  @ Fri, 14 Apr 2017 16:24:32:  43000000 
INFO  @ Fri, 14 Apr 2017 16:24:33:  44000000 
INFO  @ Fri, 14 Apr 2017 16:24:35:  45000000 
INFO  @ Fri, 14 Apr 2017 16:24:36:  46000000 
INFO  @ Fri, 14 Apr 2017 16:24:38:  47000000 
INFO  @ Fri, 14 Apr 2017 16:24:39:  48000000 
INFO  @ Fri, 14 Apr 2017 16:24:41:  49000000 
INFO  @ Fri, 14 Apr 2017 16:24:42:  50000000 
INFO  @ Fri, 14 Apr 2017 16:24:44:  51000000 
INFO  @ Fri, 14 Apr 2017 16:24:45:  52000000 
INFO  @ Fri, 14 Apr 2017 16:24:47:  53000000 
INFO  @ Fri, 14 Apr 2017 16:24:48:  54000000 
INFO  @ Fri, 14 Apr 2017 16:24:49:  55000000 
INFO  @ Fri, 14 Apr 2017 16:24:51:  56000000 
INFO  @ Fri, 14 Apr 2017 16:24:52:  57000000 
INFO  @ Fri, 14 Apr 2017 16:24:54:  58000000 
INFO  @ Fri, 14 Apr 2017 16:24:55:  59000000 
INFO  @ Fri, 14 Apr 2017 16:24:57:  60000000 
INFO  @ Fri, 14 Apr 2017 16:24:58:  61000000 
INFO  @ Fri, 14 Apr 2017 16:25:00:  62000000 
INFO  @ Fri, 14 Apr 2017 16:25:01:  63000000 
INFO  @ Fri, 14 Apr 2017 16:25:03:  64000000 
INFO  @ Fri, 14 Apr 2017 16:25:04:  65000000 
INFO  @ Fri, 14 Apr 2017 16:25:06:  66000000 
INFO  @ Fri, 14 Apr 2017 16:25:07:  67000000 
INFO  @ Fri, 14 Apr 2017 16:25:09:  68000000 
INFO  @ Fri, 14 Apr 2017 16:25:10:  69000000 
INFO  @ Fri, 14 Apr 2017 16:25:12:  70000000 
INFO  @ Fri, 14 Apr 2017 16:25:13:  71000000 
INFO  @ Fri, 14 Apr 2017 16:25:15:  72000000 
INFO  @ Fri, 14 Apr 2017 16:25:16:  73000000 
INFO  @ Fri, 14 Apr 2017 16:25:18:  74000000 
INFO  @ Fri, 14 Apr 2017 16:25:19:  75000000 
INFO  @ Fri, 14 Apr 2017 16:25:20:  76000000 
INFO  @ Fri, 14 Apr 2017 16:25:22:  77000000 
INFO  @ Fri, 14 Apr 2017 16:25:23:  78000000 
INFO  @ Fri, 14 Apr 2017 16:25:25:  79000000 
INFO  @ Fri, 14 Apr 2017 16:25:26:  80000000 
INFO  @ Fri, 14 Apr 2017 16:25:28:  81000000 
INFO  @ Fri, 14 Apr 2017 16:25:29:  82000000 
INFO  @ Fri, 14 Apr 2017 16:25:31:  83000000 
INFO  @ Fri, 14 Apr 2017 16:25:32:  84000000 
INFO  @ Fri, 14 Apr 2017 16:25:34:  85000000 
INFO  @ Fri, 14 Apr 2017 16:25:35:  86000000 
INFO  @ Fri, 14 Apr 2017 16:25:37:  87000000 
INFO  @ Fri, 14 Apr 2017 16:25:38:  88000000 
INFO  @ Fri, 14 Apr 2017 16:25:40:  89000000 
INFO  @ Fri, 14 Apr 2017 16:25:41:  90000000 
INFO  @ Fri, 14 Apr 2017 16:25:42:  91000000 
INFO  @ Fri, 14 Apr 2017 16:25:44:  92000000 
INFO  @ Fri, 14 Apr 2017 16:25:45:  93000000 
INFO  @ Fri, 14 Apr 2017 16:25:47:  94000000 
INFO  @ Fri, 14 Apr 2017 16:25:48:  95000000 
INFO  @ Fri, 14 Apr 2017 16:25:50:  96000000 
INFO  @ Fri, 14 Apr 2017 16:25:51:  97000000 
INFO  @ Fri, 14 Apr 2017 16:25:53:  98000000 
INFO  @ Fri, 14 Apr 2017 16:25:54:  99000000 
INFO  @ Fri, 14 Apr 2017 16:26:03: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:26:03: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:26:03: #1  total tags in treatment: 46114888 
INFO  @ Fri, 14 Apr 2017 16:26:03: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:26:03: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:26:03: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:26:03: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:26:03: #2 Use 240 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:26:03: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:26:03: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:26:03: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:31:22: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:34:40: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:34:41: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:34:41: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:34:42: Done!

Num	9
ID	task.callpeak_macs2.macs2_g_b_rep2_pr2.line_155.id_18
Name	macs2 g/b rep2-pr2
Thread	thread_Root
PID	47066

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:21:55
End	2017-04-14 16:35:06
Elapsed	00:13:10
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Dependencies

 
# SYS command. line 157

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 158

 export LC_COLLATE=C

# SYS command. line 163

 macs2 callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 240 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign"_summits.bed

# SYS command. line 175

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
40254 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Fri, 14 Apr 2017 16:22:16: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 240 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz']
# effective genome size = 2.70e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff for narrow/strong regions = 1.00e-02
# pvalue cutoff for broad/weak regions = 1.00e-01
# qvalue will not be calculated and reported as -1 in the final output.
# Larger dataset will be scaled towards smaller dataset.
# Range for calculating regional lambda is: 1000 bps and 10000 bps
# Broad region calling is on
 
INFO  @ Fri, 14 Apr 2017 16:22:16: #1 read tag files... 
INFO  @ Fri, 14 Apr 2017 16:22:16: #1 read treatment tags... 
INFO  @ Fri, 14 Apr 2017 16:22:18:  1000000 
INFO  @ Fri, 14 Apr 2017 16:22:20:  2000000 
INFO  @ Fri, 14 Apr 2017 16:22:21:  3000000 
INFO  @ Fri, 14 Apr 2017 16:22:23:  4000000 
INFO  @ Fri, 14 Apr 2017 16:22:24:  5000000 
INFO  @ Fri, 14 Apr 2017 16:22:26:  6000000 
INFO  @ Fri, 14 Apr 2017 16:22:28:  7000000 
INFO  @ Fri, 14 Apr 2017 16:22:29:  8000000 
INFO  @ Fri, 14 Apr 2017 16:22:31:  9000000 
INFO  @ Fri, 14 Apr 2017 16:22:32:  10000000 
INFO  @ Fri, 14 Apr 2017 16:22:34:  11000000 
INFO  @ Fri, 14 Apr 2017 16:22:35:  12000000 
INFO  @ Fri, 14 Apr 2017 16:22:37:  13000000 
INFO  @ Fri, 14 Apr 2017 16:22:38:  14000000 
INFO  @ Fri, 14 Apr 2017 16:22:40:  15000000 
INFO  @ Fri, 14 Apr 2017 16:22:41:  16000000 
INFO  @ Fri, 14 Apr 2017 16:22:43:  17000000 
INFO  @ Fri, 14 Apr 2017 16:22:44:  18000000 
INFO  @ Fri, 14 Apr 2017 16:22:46:  19000000 
INFO  @ Fri, 14 Apr 2017 16:22:48:  20000000 
INFO  @ Fri, 14 Apr 2017 16:22:49:  21000000 
INFO  @ Fri, 14 Apr 2017 16:22:51:  22000000 
INFO  @ Fri, 14 Apr 2017 16:22:53:  23000000 
INFO  @ Fri, 14 Apr 2017 16:22:54:  24000000 
INFO  @ Fri, 14 Apr 2017 16:22:56:  25000000 
INFO  @ Fri, 14 Apr 2017 16:22:57:  26000000 
INFO  @ Fri, 14 Apr 2017 16:22:59:  27000000 
INFO  @ Fri, 14 Apr 2017 16:23:00:  28000000 
INFO  @ Fri, 14 Apr 2017 16:23:02:  29000000 
INFO  @ Fri, 14 Apr 2017 16:23:03:  30000000 
INFO  @ Fri, 14 Apr 2017 16:23:05:  31000000 
INFO  @ Fri, 14 Apr 2017 16:23:06:  32000000 
INFO  @ Fri, 14 Apr 2017 16:23:08:  33000000 
INFO  @ Fri, 14 Apr 2017 16:23:10:  34000000 
INFO  @ Fri, 14 Apr 2017 16:23:11:  35000000 
INFO  @ Fri, 14 Apr 2017 16:23:13:  36000000 
INFO  @ Fri, 14 Apr 2017 16:23:14:  37000000 
INFO  @ Fri, 14 Apr 2017 16:23:16:  38000000 
INFO  @ Fri, 14 Apr 2017 16:23:17:  39000000 
INFO  @ Fri, 14 Apr 2017 16:23:19:  40000000 
INFO  @ Fri, 14 Apr 2017 16:23:20:  41000000 
INFO  @ Fri, 14 Apr 2017 16:23:22:  42000000 
INFO  @ Fri, 14 Apr 2017 16:23:24:  43000000 
INFO  @ Fri, 14 Apr 2017 16:23:25:  44000000 
INFO  @ Fri, 14 Apr 2017 16:23:27:  45000000 
INFO  @ Fri, 14 Apr 2017 16:23:28:  46000000 
INFO  @ Fri, 14 Apr 2017 16:23:32: #1.2 read input tags... 
INFO  @ Fri, 14 Apr 2017 16:23:34:  1000000 
INFO  @ Fri, 14 Apr 2017 16:23:35:  2000000 
INFO  @ Fri, 14 Apr 2017 16:23:37:  3000000 
INFO  @ Fri, 14 Apr 2017 16:23:38:  4000000 
INFO  @ Fri, 14 Apr 2017 16:23:40:  5000000 
INFO  @ Fri, 14 Apr 2017 16:23:41:  6000000 
INFO  @ Fri, 14 Apr 2017 16:23:43:  7000000 
INFO  @ Fri, 14 Apr 2017 16:23:44:  8000000 
INFO  @ Fri, 14 Apr 2017 16:23:46:  9000000 
INFO  @ Fri, 14 Apr 2017 16:23:47:  10000000 
INFO  @ Fri, 14 Apr 2017 16:23:49:  11000000 
INFO  @ Fri, 14 Apr 2017 16:23:51:  12000000 
INFO  @ Fri, 14 Apr 2017 16:23:53:  13000000 
INFO  @ Fri, 14 Apr 2017 16:23:54:  14000000 
INFO  @ Fri, 14 Apr 2017 16:23:56:  15000000 
INFO  @ Fri, 14 Apr 2017 16:23:57:  16000000 
INFO  @ Fri, 14 Apr 2017 16:23:59:  17000000 
INFO  @ Fri, 14 Apr 2017 16:24:00:  18000000 
INFO  @ Fri, 14 Apr 2017 16:24:02:  19000000 
INFO  @ Fri, 14 Apr 2017 16:24:03:  20000000 
INFO  @ Fri, 14 Apr 2017 16:24:05:  21000000 
INFO  @ Fri, 14 Apr 2017 16:24:07:  22000000 
INFO  @ Fri, 14 Apr 2017 16:24:08:  23000000 
INFO  @ Fri, 14 Apr 2017 16:24:10:  24000000 
INFO  @ Fri, 14 Apr 2017 16:24:12:  25000000 
INFO  @ Fri, 14 Apr 2017 16:24:13:  26000000 
INFO  @ Fri, 14 Apr 2017 16:24:15:  27000000 
INFO  @ Fri, 14 Apr 2017 16:24:16:  28000000 
INFO  @ Fri, 14 Apr 2017 16:24:18:  29000000 
INFO  @ Fri, 14 Apr 2017 16:24:19:  30000000 
INFO  @ Fri, 14 Apr 2017 16:24:21:  31000000 
INFO  @ Fri, 14 Apr 2017 16:24:23:  32000000 
INFO  @ Fri, 14 Apr 2017 16:24:24:  33000000 
INFO  @ Fri, 14 Apr 2017 16:24:26:  34000000 
INFO  @ Fri, 14 Apr 2017 16:24:27:  35000000 
INFO  @ Fri, 14 Apr 2017 16:24:29:  36000000 
INFO  @ Fri, 14 Apr 2017 16:24:30:  37000000 
INFO  @ Fri, 14 Apr 2017 16:24:32:  38000000 
INFO  @ Fri, 14 Apr 2017 16:24:33:  39000000 
INFO  @ Fri, 14 Apr 2017 16:24:35:  40000000 
INFO  @ Fri, 14 Apr 2017 16:24:36:  41000000 
INFO  @ Fri, 14 Apr 2017 16:24:38:  42000000 
INFO  @ Fri, 14 Apr 2017 16:24:40:  43000000 
INFO  @ Fri, 14 Apr 2017 16:24:41:  44000000 
INFO  @ Fri, 14 Apr 2017 16:24:43:  45000000 
INFO  @ Fri, 14 Apr 2017 16:24:44:  46000000 
INFO  @ Fri, 14 Apr 2017 16:24:46:  47000000 
INFO  @ Fri, 14 Apr 2017 16:24:47:  48000000 
INFO  @ Fri, 14 Apr 2017 16:24:49:  49000000 
INFO  @ Fri, 14 Apr 2017 16:24:51:  50000000 
INFO  @ Fri, 14 Apr 2017 16:24:52:  51000000 
INFO  @ Fri, 14 Apr 2017 16:24:54:  52000000 
INFO  @ Fri, 14 Apr 2017 16:24:55:  53000000 
INFO  @ Fri, 14 Apr 2017 16:24:57:  54000000 
INFO  @ Fri, 14 Apr 2017 16:24:59:  55000000 
INFO  @ Fri, 14 Apr 2017 16:25:00:  56000000 
INFO  @ Fri, 14 Apr 2017 16:25:02:  57000000 
INFO  @ Fri, 14 Apr 2017 16:25:03:  58000000 
INFO  @ Fri, 14 Apr 2017 16:25:05:  59000000 
INFO  @ Fri, 14 Apr 2017 16:25:06:  60000000 
INFO  @ Fri, 14 Apr 2017 16:25:08:  61000000 
INFO  @ Fri, 14 Apr 2017 16:25:09:  62000000 
INFO  @ Fri, 14 Apr 2017 16:25:11:  63000000 
INFO  @ Fri, 14 Apr 2017 16:25:13:  64000000 
INFO  @ Fri, 14 Apr 2017 16:25:14:  65000000 
INFO  @ Fri, 14 Apr 2017 16:25:16:  66000000 
INFO  @ Fri, 14 Apr 2017 16:25:18:  67000000 
INFO  @ Fri, 14 Apr 2017 16:25:19:  68000000 
INFO  @ Fri, 14 Apr 2017 16:25:21:  69000000 
INFO  @ Fri, 14 Apr 2017 16:25:22:  70000000 
INFO  @ Fri, 14 Apr 2017 16:25:24:  71000000 
INFO  @ Fri, 14 Apr 2017 16:25:25:  72000000 
INFO  @ Fri, 14 Apr 2017 16:25:27:  73000000 
INFO  @ Fri, 14 Apr 2017 16:25:28:  74000000 
INFO  @ Fri, 14 Apr 2017 16:25:30:  75000000 
INFO  @ Fri, 14 Apr 2017 16:25:31:  76000000 
INFO  @ Fri, 14 Apr 2017 16:25:33:  77000000 
INFO  @ Fri, 14 Apr 2017 16:25:35:  78000000 
INFO  @ Fri, 14 Apr 2017 16:25:36:  79000000 
INFO  @ Fri, 14 Apr 2017 16:25:38:  80000000 
INFO  @ Fri, 14 Apr 2017 16:25:39:  81000000 
INFO  @ Fri, 14 Apr 2017 16:25:41:  82000000 
INFO  @ Fri, 14 Apr 2017 16:25:43:  83000000 
INFO  @ Fri, 14 Apr 2017 16:25:44:  84000000 
INFO  @ Fri, 14 Apr 2017 16:25:46:  85000000 
INFO  @ Fri, 14 Apr 2017 16:25:47:  86000000 
INFO  @ Fri, 14 Apr 2017 16:25:49:  87000000 
INFO  @ Fri, 14 Apr 2017 16:25:50:  88000000 
INFO  @ Fri, 14 Apr 2017 16:25:52:  89000000 
INFO  @ Fri, 14 Apr 2017 16:25:54:  90000000 
INFO  @ Fri, 14 Apr 2017 16:25:55:  91000000 
INFO  @ Fri, 14 Apr 2017 16:25:57:  92000000 
INFO  @ Fri, 14 Apr 2017 16:25:58:  93000000 
INFO  @ Fri, 14 Apr 2017 16:26:00:  94000000 
INFO  @ Fri, 14 Apr 2017 16:26:01:  95000000 
INFO  @ Fri, 14 Apr 2017 16:26:03:  96000000 
INFO  @ Fri, 14 Apr 2017 16:26:04:  97000000 
INFO  @ Fri, 14 Apr 2017 16:26:06:  98000000 
INFO  @ Fri, 14 Apr 2017 16:26:07:  99000000 
INFO  @ Fri, 14 Apr 2017 16:26:15: #1 tag size is determined as 101 bps 
INFO  @ Fri, 14 Apr 2017 16:26:15: #1 tag size = 101 
INFO  @ Fri, 14 Apr 2017 16:26:15: #1  total tags in treatment: 46114886 
INFO  @ Fri, 14 Apr 2017 16:26:15: #1  total tags in control: 99976272 
INFO  @ Fri, 14 Apr 2017 16:26:15: #1 finished! 
INFO  @ Fri, 14 Apr 2017 16:26:15: #2 Build Peak Model... 
INFO  @ Fri, 14 Apr 2017 16:26:15: #2 Skipped... 
INFO  @ Fri, 14 Apr 2017 16:26:15: #2 Use 240 as fragment length 
INFO  @ Fri, 14 Apr 2017 16:26:15: #3 Call peaks... 
INFO  @ Fri, 14 Apr 2017 16:26:15: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Fri, 14 Apr 2017 16:26:15: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Fri, 14 Apr 2017 16:31:31: #3 Call peaks for each chromosome... 
INFO  @ Fri, 14 Apr 2017 16:34:59: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.xls 
INFO  @ Fri, 14 Apr 2017 16:35:01: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.broadPeak 
INFO  @ Fri, 14 Apr 2017 16:35:01: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign_peaks.gappedPeak 
INFO  @ Fri, 14 Apr 2017 16:35:02: Done!

Num	10
ID	task.callpeak_naive_overlap.naive_overlap.line_143.id_19
Name	naive_overlap
Thread	thread_Root
PID	47067

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:37:11
End	2017-04-14 16:38:31
Elapsed	00:01:19
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.gz
Dependencies

 
# SYS command. line 145

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 148

 intersectBed  -wo -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz) | awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$18-$17; if (($31/s1 >= 0.5) || ($31/s2 >= 0.5)) {print $0}}' | cut -f 1-15 | sort | uniq | intersectBed  -wo -a stdin -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz) | awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$18-$17; if (($31/s1 >= 0.5) || ($31/s2 >= 0.5)) {print $0}}' | cut -f 1-15 | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInReps.gappedPeak.gz

# SYS command. line 151

 intersectBed  -wo -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz) | awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$18-$17; if (($31/s1 >= 0.5) || ($31/s2 >= 0.5)) {print $0}}' | cut -f 1-15 | sort | uniq | intersectBed  -wo -a stdin -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.gappedPeak.gz) |    awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$18-$17; if (($31/s1 >= 0.5) || ($31/s2 >= 0.5)) {print $0}}' | cut -f 1-15 | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInPsRep1AndPsRep2.gappedPeak.gz

# SYS command. line 154

 zcat /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInReps.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInPsRep1AndPsRep2.gappedPeak.gz | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.gappedPeak.gz

# SYS command. line 156

 bedtools intersect -v -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.gappedPeak.gz) -b <(zcat -f /mnt/data/bds_pipeline_genome_data/hg38_ENCODE/hg38.blacklist.bed.gz)  | grep -P 'chr[\dXY]+[ \t]' | awk 'BEGIN{OFS="\t"} {if ($5>1000) $5=1000; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.gz

# SYS command. line 158

 rm -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInReps.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInPsRep1AndPsRep2.gappedPeak.gz

# SYS command. line 160

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
16334 (process ID) old priority 0, new priority 19
Waiting for 58 seconds.

Num	11
ID	task.callpeak_naive_overlap.naive_overlap.line_143.id_20
Name	naive_overlap
Thread	thread_Root
PID	47068

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:37:12
End	2017-04-14 16:38:30
Elapsed	00:01:18
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.broadPeak.gz
Dependencies

 
# SYS command. line 145

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 148

 intersectBed  -wo -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep1/ENCFF066ZSK.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz) | awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$12-$11; if (($19/s1 >= 0.5) || ($19/s2 >= 0.5)) {print $0}}' | cut -f 1-9 | sort | uniq | intersectBed  -wo -a stdin -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/rep2/ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz) | awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$12-$11; if (($19/s1 >= 0.5) || ($19/s2 >= 0.5)) {print $0}}' | cut -f 1-9 | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInReps.broadPeak.gz

# SYS command. line 151

 intersectBed  -wo -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_rep/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF066ZSK.pr1_ENCFF241VRG.pr1.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz) | awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$12-$11; if (($19/s1 >= 0.5) || ($19/s2 >= 0.5)) {print $0}}' | cut -f 1-9 | sort | uniq | intersectBed  -wo -a stdin -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF066ZSK.pr2_ENCFF241VRG.pr2.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.broadPeak.gz) |    awk 'BEGIN{FS="\t";OFS="\t"} {s1=$3-$2; s2=$12-$11; if (($19/s1 >= 0.5) || ($19/s2 >= 0.5)) {print $0}}' | cut -f 1-9 | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInPsRep1AndPsRep2.broadPeak.gz

# SYS command. line 154

 zcat /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInReps.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInPsRep1AndPsRep2.broadPeak.gz | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.broadPeak.gz

# SYS command. line 156

 bedtools intersect -v -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.broadPeak.gz) -b <(zcat -f /mnt/data/bds_pipeline_genome_data/hg38_ENCODE/hg38.blacklist.bed.gz)  | grep -P 'chr[\dXY]+[ \t]' | awk 'BEGIN{OFS="\t"} {if ($5>1000) $5=1000; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.broadPeak.gz

# SYS command. line 158

 rm -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInReps.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.PooledInPsRep1AndPsRep2.broadPeak.gz

# SYS command. line 160

 TASKTIME=$[$(date +%s)-${STARTTIME}]; if [ ${TASKTIME} -lt 60 ]; then echo "Waiting for $[60-${TASKTIME}] seconds."; sleep $[60-${TASKTIME}]; fi

   
--------------------Stdout--------------------
16339 (process ID) old priority 0, new priority 19
Waiting for 58 seconds.

Num	12
ID	task.report.peak2hammock.line_361.id_23
Name	peak2hammock
Thread	thread_Root
PID	19302

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:38:36
End	2017-04-14 16:38:46
Elapsed	00:00:10
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.hammock.gz
Dependencies

 
# SYS command. line 363

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 364

 zcat /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.gz | sed '/^\(chr\)/!d' | sort -k1,1V -k2,2n > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.tmp

# SYS command. line 366

 /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils/gappedpeak.py /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.tmp /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.hammock

# SYS command. line 367

 rm -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/peak/macs2/overlap/ENCFF066ZSK_ENCFF241VRG.tagAlign_x_ss_50M_4000_GRCh38.PE2SE.tagAlign.naive_overlap.filt.gappedPeak.tmp

   
--------------------Stdout--------------------
19306 (process ID) old priority 0, new priority 19

Num	13
ID	task.graphviz.report.line_97.id_24
Name	report
Thread	thread_Root
PID	19813

OK	true
Exit Code	0
Retries
State	FINISHED
Dep.	OK
Cpus
Mem

Start	2017-04-14 16:38:48
End	2017-04-14 16:38:56
Elapsed	00:00:08
Timeout	00:00:-1
Wall Timeout	100 days

Input files
Output files
Dependencies

 
# SYS command. line 98

 if [[ -f $(which /software/miniconda3/bin/conda) && $(/software/miniconda3/bin/conda env list | grep aquas_chipseq | wc -l) != "0" ]]; then source /software/miniconda3/bin/activate aquas_chipseq; sleep 5; fi;  export PATH=/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/.:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/modules:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/utils:${PATH}:/bin:/usr/bin:/usr/local/bin:${HOME}/.bds; set -o pipefail; STARTTIME=$(date +%s); if (( $(nice)<19 )); then renice -n 19 $$; fi

# SYS command. line 99

 dot -Tsvg /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/report/ZBTB26_MACS2_workflow.dot > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/report/ZBTB26_MACS2_workflow.svg 2> /dev/null || echo "svg: /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/report/ZBTB26_MACS2_workflow.svg" # to suppress dot font error (exit code=1)

   
--------------------Stdout--------------------
19817 (process ID) old priority 0, new priority 19

Type	Name	Value
string	_	/usr/bin/bds
string	_LMFILES_	/software/modulefiles/modsappsdir/modsappsdir:/software/modulefiles/ucsc_tools/3.0.9
bool	allowEmpty	false
string[]	args	[-title, ZBTB26_MACS2, -nth, 5, -species, hg38_ENCODE, -url_base, http://mitra.stanford.edu/kundaje/leepc12/imk_chipseq/ZBTB26_MACS2/out, -filt_bam1, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep1/ENCFF066ZSK.bam, -filt_bam2, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2/out/align/rep2/ENCFF241VRG.bam, -ctl_tag, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_4000_GRCh38.PE2SE.tagAlign.gz, -pe, -histone, $]
bool	canFail	false
string	CPATH	/users/imk1/anaconda2/pkgs/gsl-1.16-1/include
int	cpus	-1
int	cpusLocal	56
int	day	86400
string	DEEPLIFT_DIR	/srv/scratch/imk1/TFBindingPredictionProject/src/deeplift/deeplift
string	DERBY_HOME	/usr/lib/jvm/java-8-oracle/db
string	DISPLAY	localhost:11.0
real	E	2.718281828459045
string	ENHANCER_SCRIPTS_DIR	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/enhancer_prediction_code/
string	EVENT_NOEPOLL	1
int	G	1073741824
string	HOME	/users/imk1/
int	hour	3600
string	J2REDIR	/usr/lib/jvm/java-8-oracle/jre
string	J2SDKDIR	/usr/lib/jvm/java-8-oracle
string	JAVA_HOME	/usr/lib/jvm/java-8-oracle
int	K	1024
string	KERAS_DIR	/users/imk1/.local/lib/python2.7/site-packages/keras/
string	KRB5CCNAME	FILE:/tmp/krb5cc_1048_CCx82k
string	LANG	en_US.UTF-8
string	LIBRARY_PATH	/users/imk1/anaconda2/pkgs/gsl-1.16-1/lib
string	LOADEDMODULES	modsappsdir/modsappsdir:ucsc_tools/3.0.9
string	LOGNAME	imk1
int	M	1048576
string	MAIL	/var/mail/imk1
int	mem	-1
int	minute	60
string	MODULE_VERSION	3.2.10
string	MODULE_VERSION_STACK	3.2.10
string	MODULEPATH	/usr/local/Modules/versions\t\t\t\t:/usr/local/Modules/$MODULE_VERSION/modulefiles\t:/modules/\t\t\t\t:/software/modulefiles
string	MODULESAPPSDIR	/software
string	MODULESHOME	/software/env_module/3.2.10
string	NLSPATH	/usr/dt/lib/nls/msg/%L/%N.cat
string	node
int	P	1125899906842624
string	PATH	/users/imk1/anaconda2/bin:/users/imk1/perl5/bin:/srv/scratch/imk1/TFBindingPredictionProject/src/bedtools2/bin:/usr/local/cuda/bin:/srv/scratch/imk1/TFBindingPredictionProject/src/rcade/:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/software/miniconda3/bin:/usr/lib/jvm/java-8-oracle/bin:/usr/lib/jvm/java-8-oracle/db/bin:/usr/lib/jvm/java-8-oracle/jre/bin:/users/imk1/edirect:/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/av_scripts//exec:/users/imk1/edirect:/snap/bin:/software/miniconda3/bin:/usr/lib/jvm/java-8-oracle/bin:/usr/lib/jvm/java-8-oracle/db/bin:/usr/lib/jvm/java-8-oracle/jre/bin:/users/imk1/edirect:/software/ucsc_tools/3.0.9:/software/ucsc_tools/3.0.9/blat
string	PERL5LIB	/users/imk1/perl5/lib/perl5
string	PERL_LOCAL_LIB_ROOT	/users/imk1/perl5
string	PERL_MB_OPT	--install_base \"/users/imk1/perl5\"
string	PERL_MM_OPT	INSTALL_BASE=/users/imk1/perl5
real	PI	3.141592653589793
string	ppwd	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2
string	programName	chipseq.bds
string	programPath	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/chipseq.bds
string	PWD	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZBTB26_MACS2
string	PYTHONPATH	/users/imk1/.local/lib/python2.7/site-packages/keras/:/srv/scratch/imk1/TFBindingPredictionProject/src/pybedtools/
string	queue
int	retry	0
string	RULEFITBASE	/srv/scratch/imk1/TFBindingPredictionProject/src/RuleFit/
string	SHELL	/bin/bash
string	SHLVL	4
string	SSH_CLIENT	171.65.77.8 57066 22
string	SSH_CONNECTION	171.65.77.8 57066 171.65.76.63 22
string	SSH_TTY	/dev/pts/4
string	STY	56945.ZBTB26_MACS2.BDS
string	system	sge
int	T	1099511627776
string	TERM	screen
string	TERMCAP	SC\|screen\|VT 100/ANSI X3.64 virtual terminal:\\\n\t:DO=\\E[%dB:LE=\\E[%dD:RI=\\E[%dC:UP=\\E[%dA:bs:bt=\\E[Z:\\\n\t:cd=\\E[J:ce=\\E[K:cl=\\E[H\\E[J:cm=\\E[%i%d;%dH:ct=\\E[3g:\\\n\t:do=^J:nd=\\E[C:pt:rc=\\E8:rs=\\Ec:sc=\\E7:st=\\EH:up=\\EM:\\\n\t:le=^H:bl=^G:cr=^M:it#8:ho=\\E[H:nw=\\EE:ta=^I:is=\\E)0:\\\n\t:li#24:co#80:am:xn:xv:LP:sr=\\EM:al=\\E[L:AL=\\E[%dL:\\\n\t:cs=\\E[%i%d;%dr:dl=\\E[M:DL=\\E[%dM:dc=\\E[P:DC=\\E[%dP:\\\n\t:im=\\E[4h:ei=\\E[4l:mi:IC=\\E[%d@:ks=\\E[?1h\\E=:\\\n\t:ke=\\E[?1l\\E>:vi=\\E[?25l:ve=\\E[34h\\E[?25h:vs=\\E[34l:\\\n\t:ti=\\E[?1049h:te=\\E[?1049l:Km=\\E[M:k0=\\E[10~:k1=\\EOP:\\\n\t:k2=\\EOQ:k3=\\EOR:k4=\\EOS:k5=\\E[15~:k6=\\E[17~:k7=\\E[18~:\\\n\t:k8=\\E[19~:k9=\\E[20~:k;=\\E[21~:F1=\\E[23~:F2=\\E[24~:\\\n\t:kh=\\E[1~:@1=\\E[1~:kH=\\E[4~:@7=\\E[4~:kN=\\E[6~:kP=\\E[5~:\\\n\t:kI=\\E[2~:kD=\\E[3~:ku=\\EOA:kd=\\EOB:kr=\\EOC:kl=\\EOD:
int	timeout	-1
string	TMUX	/tmp/tmux-1048/default,43619,0
string	TMUX_PANE	%0
string	USER	imk1
string	UTIL_SCRIPTS_DIR	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/av_scripts/
int	walltimeout	8640000
int	week	604800
string	WINDOW	0
string	XDG_RUNTIME_DIR	/run/user/1048
string	XDG_SESSION_ID	67062
string	XFILESEARCHPATH	/usr/dt/app-defaults/%L/Dt

BigDataScript report: chipseq.bds

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Parallel (threads) details

Task details

Global scope