Script file	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/chipseq_pipeline/chipseq.bds
Program ID	chipseq.bds.20170413_183735_168
Start time	2017-04-13 18:37:35
Run time	00:38:19.398
Tasks executed	13
Tasks failed	0
Tasks failed names
Arguments*	[-title, ZIC2_MACS2, -nth, 5, -species, hg38_ENCODE, -url_base, http://mitra.stanford.edu/kundaje/leepc12/imk_chipseq/ZIC2_MACS2/out, -filt_bam1, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep1/ENCFF558PHY.bam, -filt_bam2, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep2/ENCFF645WYX.bam, -ctl_tag, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz, -pe, -histone, $]
System*	sge
Cpus*	-1
Exit value	0

Thread ID	Parent	Tasks
thread_Root	None	chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_pooled_rep.line_155.id_10 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_ppr1.line_155.id_11 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_ppr2.line_155.id_12 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_rep1.line_155.id_13 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_rep1_pr1.line_155.id_14 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_rep1_pr2.line_155.id_15 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_rep2.line_155.id_16 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_rep2_pr1.line_155.id_17 chipseq.bds.20170413_183735_168/task.callpeak_macs2.macs2_g_b_rep2_pr2.line_155.id_18 chipseq.bds.20170413_183735_168/task.callpeak_naive_overlap.naive_overlap.line_143.id_19 chipseq.bds.20170413_183735_168/task.callpeak_naive_overlap.naive_overlap.line_143.id_20 chipseq.bds.20170413_183735_168/task.report.peak2hammock.line_361.id_23 chipseq.bds.20170413_183735_168/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	46965

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

Start	2017-04-13 18:37:48
End	2017-04-13 19:05:00
Elapsed	00:27:12
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 213 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
14014 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:38:02: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 213 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:38:02: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:38:02: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:38:04:  1000000 
INFO  @ Thu, 13 Apr 2017 18:38:06:  2000000 
INFO  @ Thu, 13 Apr 2017 18:38:08:  3000000 
INFO  @ Thu, 13 Apr 2017 18:38:10:  4000000 
INFO  @ Thu, 13 Apr 2017 18:38:12:  5000000 
INFO  @ Thu, 13 Apr 2017 18:38:14:  6000000 
INFO  @ Thu, 13 Apr 2017 18:38:16:  7000000 
INFO  @ Thu, 13 Apr 2017 18:38:18:  8000000 
INFO  @ Thu, 13 Apr 2017 18:38:20:  9000000 
INFO  @ Thu, 13 Apr 2017 18:38:22:  10000000 
INFO  @ Thu, 13 Apr 2017 18:38:24:  11000000 
INFO  @ Thu, 13 Apr 2017 18:38:26:  12000000 
INFO  @ Thu, 13 Apr 2017 18:38:28:  13000000 
INFO  @ Thu, 13 Apr 2017 18:38:30:  14000000 
INFO  @ Thu, 13 Apr 2017 18:38:32:  15000000 
INFO  @ Thu, 13 Apr 2017 18:38:34:  16000000 
INFO  @ Thu, 13 Apr 2017 18:38:36:  17000000 
INFO  @ Thu, 13 Apr 2017 18:38:38:  18000000 
INFO  @ Thu, 13 Apr 2017 18:38:40:  19000000 
INFO  @ Thu, 13 Apr 2017 18:38:42:  20000000 
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INFO  @ Thu, 13 Apr 2017 18:38:48:  23000000 
INFO  @ Thu, 13 Apr 2017 18:38:50:  24000000 
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INFO  @ Thu, 13 Apr 2017 18:38:56:  27000000 
INFO  @ Thu, 13 Apr 2017 18:38:58:  28000000 
INFO  @ Thu, 13 Apr 2017 18:39:00:  29000000 
INFO  @ Thu, 13 Apr 2017 18:39:02:  30000000 
INFO  @ Thu, 13 Apr 2017 18:39:04:  31000000 
INFO  @ Thu, 13 Apr 2017 18:39:06:  32000000 
INFO  @ Thu, 13 Apr 2017 18:39:08:  33000000 
INFO  @ Thu, 13 Apr 2017 18:39:10:  34000000 
INFO  @ Thu, 13 Apr 2017 18:39:12:  35000000 
INFO  @ Thu, 13 Apr 2017 18:39:14:  36000000 
INFO  @ Thu, 13 Apr 2017 18:39:16:  37000000 
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INFO  @ Thu, 13 Apr 2017 18:39:22:  40000000 
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INFO  @ Thu, 13 Apr 2017 18:39:41:  50000000 
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INFO  @ Thu, 13 Apr 2017 18:39:57:  58000000 
INFO  @ Thu, 13 Apr 2017 18:39:59:  59000000 
INFO  @ Thu, 13 Apr 2017 18:40:01:  60000000 
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INFO  @ Thu, 13 Apr 2017 18:40:08:  64000000 
INFO  @ Thu, 13 Apr 2017 18:40:10:  65000000 
INFO  @ Thu, 13 Apr 2017 18:40:12:  66000000 
INFO  @ Thu, 13 Apr 2017 18:40:14:  67000000 
INFO  @ Thu, 13 Apr 2017 18:40:16:  68000000 
INFO  @ Thu, 13 Apr 2017 18:40:18:  69000000 
INFO  @ Thu, 13 Apr 2017 18:40:20:  70000000 
INFO  @ Thu, 13 Apr 2017 18:40:22:  71000000 
INFO  @ Thu, 13 Apr 2017 18:40:24:  72000000 
INFO  @ Thu, 13 Apr 2017 18:40:26:  73000000 
INFO  @ Thu, 13 Apr 2017 18:40:28:  74000000 
INFO  @ Thu, 13 Apr 2017 18:40:30:  75000000 
INFO  @ Thu, 13 Apr 2017 18:40:32:  76000000 
INFO  @ Thu, 13 Apr 2017 18:40:34:  77000000 
INFO  @ Thu, 13 Apr 2017 18:40:36:  78000000 
INFO  @ Thu, 13 Apr 2017 18:40:38:  79000000 
INFO  @ Thu, 13 Apr 2017 18:40:40:  80000000 
INFO  @ Thu, 13 Apr 2017 18:40:42:  81000000 
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INFO  @ Thu, 13 Apr 2017 18:40:46:  83000000 
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INFO  @ Thu, 13 Apr 2017 18:40:55:  88000000 
INFO  @ Thu, 13 Apr 2017 18:40:57:  89000000 
INFO  @ Thu, 13 Apr 2017 18:40:59:  90000000 
INFO  @ Thu, 13 Apr 2017 18:41:01:  91000000 
INFO  @ Thu, 13 Apr 2017 18:41:03:  92000000 
INFO  @ Thu, 13 Apr 2017 18:41:05:  93000000 
INFO  @ Thu, 13 Apr 2017 18:41:07:  94000000 
INFO  @ Thu, 13 Apr 2017 18:41:09:  95000000 
INFO  @ Thu, 13 Apr 2017 18:41:11:  96000000 
INFO  @ Thu, 13 Apr 2017 18:41:13:  97000000 
INFO  @ Thu, 13 Apr 2017 18:41:15:  98000000 
INFO  @ Thu, 13 Apr 2017 18:41:17:  99000000 
INFO  @ Thu, 13 Apr 2017 18:41:19:  100000000 
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INFO  @ Thu, 13 Apr 2017 18:41:23:  102000000 
INFO  @ Thu, 13 Apr 2017 18:41:25:  103000000 
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INFO  @ Thu, 13 Apr 2017 18:41:29:  105000000 
INFO  @ Thu, 13 Apr 2017 18:41:30:  106000000 
INFO  @ Thu, 13 Apr 2017 18:41:32:  107000000 
INFO  @ Thu, 13 Apr 2017 18:41:34:  108000000 
INFO  @ Thu, 13 Apr 2017 18:41:45: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:41:47:  1000000 
INFO  @ Thu, 13 Apr 2017 18:41:48:  2000000 
INFO  @ Thu, 13 Apr 2017 18:41:50:  3000000 
INFO  @ Thu, 13 Apr 2017 18:41:52:  4000000 
INFO  @ Thu, 13 Apr 2017 18:41:54:  5000000 
INFO  @ Thu, 13 Apr 2017 18:41:56:  6000000 
INFO  @ Thu, 13 Apr 2017 18:41:58:  7000000 
INFO  @ Thu, 13 Apr 2017 18:41:59:  8000000 
INFO  @ Thu, 13 Apr 2017 18:42:01:  9000000 
INFO  @ Thu, 13 Apr 2017 18:42:03:  10000000 
INFO  @ Thu, 13 Apr 2017 18:42:05:  11000000 
INFO  @ Thu, 13 Apr 2017 18:42:07:  12000000 
INFO  @ Thu, 13 Apr 2017 18:42:09:  13000000 
INFO  @ Thu, 13 Apr 2017 18:42:10:  14000000 
INFO  @ Thu, 13 Apr 2017 18:42:12:  15000000 
INFO  @ Thu, 13 Apr 2017 18:42:14:  16000000 
INFO  @ Thu, 13 Apr 2017 18:42:16:  17000000 
INFO  @ Thu, 13 Apr 2017 18:42:18:  18000000 
INFO  @ Thu, 13 Apr 2017 18:42:20:  19000000 
INFO  @ Thu, 13 Apr 2017 18:42:21:  20000000 
INFO  @ Thu, 13 Apr 2017 18:42:23:  21000000 
INFO  @ Thu, 13 Apr 2017 18:42:25:  22000000 
INFO  @ Thu, 13 Apr 2017 18:42:27:  23000000 
INFO  @ Thu, 13 Apr 2017 18:42:29:  24000000 
INFO  @ Thu, 13 Apr 2017 18:42:31:  25000000 
INFO  @ Thu, 13 Apr 2017 18:42:33:  26000000 
INFO  @ Thu, 13 Apr 2017 18:42:35:  27000000 
INFO  @ Thu, 13 Apr 2017 18:42:36:  28000000 
INFO  @ Thu, 13 Apr 2017 18:42:38:  29000000 
INFO  @ Thu, 13 Apr 2017 18:42:40:  30000000 
INFO  @ Thu, 13 Apr 2017 18:42:42:  31000000 
INFO  @ Thu, 13 Apr 2017 18:42:44:  32000000 
INFO  @ Thu, 13 Apr 2017 18:42:46:  33000000 
INFO  @ Thu, 13 Apr 2017 18:42:47:  34000000 
INFO  @ Thu, 13 Apr 2017 18:42:49:  35000000 
INFO  @ Thu, 13 Apr 2017 18:42:51:  36000000 
INFO  @ Thu, 13 Apr 2017 18:42:53:  37000000 
INFO  @ Thu, 13 Apr 2017 18:42:55:  38000000 
INFO  @ Thu, 13 Apr 2017 18:42:57:  39000000 
INFO  @ Thu, 13 Apr 2017 18:42:58:  40000000 
INFO  @ Thu, 13 Apr 2017 18:43:00:  41000000 
INFO  @ Thu, 13 Apr 2017 18:43:02:  42000000 
INFO  @ Thu, 13 Apr 2017 18:43:04:  43000000 
INFO  @ Thu, 13 Apr 2017 18:43:06:  44000000 
INFO  @ Thu, 13 Apr 2017 18:43:08:  45000000 
INFO  @ Thu, 13 Apr 2017 18:43:09:  46000000 
INFO  @ Thu, 13 Apr 2017 18:43:11:  47000000 
INFO  @ Thu, 13 Apr 2017 18:43:13:  48000000 
INFO  @ Thu, 13 Apr 2017 18:43:15:  49000000 
INFO  @ Thu, 13 Apr 2017 18:43:17:  50000000 
INFO  @ Thu, 13 Apr 2017 18:43:19:  51000000 
INFO  @ Thu, 13 Apr 2017 18:43:20:  52000000 
INFO  @ Thu, 13 Apr 2017 18:43:22:  53000000 
INFO  @ Thu, 13 Apr 2017 18:43:24:  54000000 
INFO  @ Thu, 13 Apr 2017 18:43:26:  55000000 
INFO  @ Thu, 13 Apr 2017 18:43:28:  56000000 
INFO  @ Thu, 13 Apr 2017 18:43:30:  57000000 
INFO  @ Thu, 13 Apr 2017 18:43:31:  58000000 
INFO  @ Thu, 13 Apr 2017 18:43:33:  59000000 
INFO  @ Thu, 13 Apr 2017 18:43:35:  60000000 
INFO  @ Thu, 13 Apr 2017 18:43:37:  61000000 
INFO  @ Thu, 13 Apr 2017 18:43:39:  62000000 
INFO  @ Thu, 13 Apr 2017 18:43:41:  63000000 
INFO  @ Thu, 13 Apr 2017 18:43:43:  64000000 
INFO  @ Thu, 13 Apr 2017 18:43:45:  65000000 
INFO  @ Thu, 13 Apr 2017 18:43:47:  66000000 
INFO  @ Thu, 13 Apr 2017 18:43:48:  67000000 
INFO  @ Thu, 13 Apr 2017 18:43:50:  68000000 
INFO  @ Thu, 13 Apr 2017 18:43:52:  69000000 
INFO  @ Thu, 13 Apr 2017 18:43:54:  70000000 
INFO  @ Thu, 13 Apr 2017 18:43:56:  71000000 
INFO  @ Thu, 13 Apr 2017 18:43:58:  72000000 
INFO  @ Thu, 13 Apr 2017 18:43:59:  73000000 
INFO  @ Thu, 13 Apr 2017 18:44:01:  74000000 
INFO  @ Thu, 13 Apr 2017 18:44:04:  75000000 
INFO  @ Thu, 13 Apr 2017 18:44:05:  76000000 
INFO  @ Thu, 13 Apr 2017 18:44:07:  77000000 
INFO  @ Thu, 13 Apr 2017 18:44:09:  78000000 
INFO  @ Thu, 13 Apr 2017 18:44:11:  79000000 
INFO  @ Thu, 13 Apr 2017 18:44:13:  80000000 
INFO  @ Thu, 13 Apr 2017 18:44:15:  81000000 
INFO  @ Thu, 13 Apr 2017 18:44:16:  82000000 
INFO  @ Thu, 13 Apr 2017 18:44:18:  83000000 
INFO  @ Thu, 13 Apr 2017 18:44:20:  84000000 
INFO  @ Thu, 13 Apr 2017 18:44:22:  85000000 
INFO  @ Thu, 13 Apr 2017 18:44:24:  86000000 
INFO  @ Thu, 13 Apr 2017 18:44:26:  87000000 
INFO  @ Thu, 13 Apr 2017 18:44:27:  88000000 
INFO  @ Thu, 13 Apr 2017 18:44:29:  89000000 
INFO  @ Thu, 13 Apr 2017 18:44:31:  90000000 
INFO  @ Thu, 13 Apr 2017 18:44:33:  91000000 
INFO  @ Thu, 13 Apr 2017 18:44:35:  92000000 
INFO  @ Thu, 13 Apr 2017 18:44:37:  93000000 
INFO  @ Thu, 13 Apr 2017 18:44:38:  94000000 
INFO  @ Thu, 13 Apr 2017 18:44:40:  95000000 
INFO  @ Thu, 13 Apr 2017 18:44:42:  96000000 
INFO  @ Thu, 13 Apr 2017 18:44:44:  97000000 
INFO  @ Thu, 13 Apr 2017 18:44:46:  98000000 
INFO  @ Thu, 13 Apr 2017 18:44:47:  99000000 
INFO  @ Thu, 13 Apr 2017 18:44:49: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:44:49: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:44:49: #1  total tags in treatment: 108422852 
INFO  @ Thu, 13 Apr 2017 18:44:49: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:44:49: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:44:49: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:44:49: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:44:49: #2 Use 213 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:44:49: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:44:49: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:44:49: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 18:56:21: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 19:04:52: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 19:04:54: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 19:04:55: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 19:04:55: Done!

Num	2
ID	task.callpeak_macs2.macs2_g_b_ppr1.line_155.id_11
Name	macs2 g/b ppr1
Thread	thread_Root
PID	46968

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

Start	2017-04-13 18:37:50
End	2017-04-13 18:51:29
Elapsed	00:13:38
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 213 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
47349 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:38:01: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 213 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:38:01: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:38:01: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:38:03:  1000000 
INFO  @ Thu, 13 Apr 2017 18:38:05:  2000000 
INFO  @ Thu, 13 Apr 2017 18:38:07:  3000000 
INFO  @ Thu, 13 Apr 2017 18:38:08:  4000000 
INFO  @ Thu, 13 Apr 2017 18:38:10:  5000000 
INFO  @ Thu, 13 Apr 2017 18:38:11:  6000000 
INFO  @ Thu, 13 Apr 2017 18:38:13:  7000000 
INFO  @ Thu, 13 Apr 2017 18:38:14:  8000000 
INFO  @ Thu, 13 Apr 2017 18:38:16:  9000000 
INFO  @ Thu, 13 Apr 2017 18:38:17:  10000000 
INFO  @ Thu, 13 Apr 2017 18:38:19:  11000000 
INFO  @ Thu, 13 Apr 2017 18:38:20:  12000000 
INFO  @ Thu, 13 Apr 2017 18:38:22:  13000000 
INFO  @ Thu, 13 Apr 2017 18:38:24:  14000000 
INFO  @ Thu, 13 Apr 2017 18:38:25:  15000000 
INFO  @ Thu, 13 Apr 2017 18:38:27:  16000000 
INFO  @ Thu, 13 Apr 2017 18:38:28:  17000000 
INFO  @ Thu, 13 Apr 2017 18:38:30:  18000000 
INFO  @ Thu, 13 Apr 2017 18:38:31:  19000000 
INFO  @ Thu, 13 Apr 2017 18:38:33:  20000000 
INFO  @ Thu, 13 Apr 2017 18:38:34:  21000000 
INFO  @ Thu, 13 Apr 2017 18:38:36:  22000000 
INFO  @ Thu, 13 Apr 2017 18:38:37:  23000000 
INFO  @ Thu, 13 Apr 2017 18:38:39:  24000000 
INFO  @ Thu, 13 Apr 2017 18:38:41:  25000000 
INFO  @ Thu, 13 Apr 2017 18:38:42:  26000000 
INFO  @ Thu, 13 Apr 2017 18:38:44:  27000000 
INFO  @ Thu, 13 Apr 2017 18:38:45:  28000000 
INFO  @ Thu, 13 Apr 2017 18:38:47:  29000000 
INFO  @ Thu, 13 Apr 2017 18:38:48:  30000000 
INFO  @ Thu, 13 Apr 2017 18:38:50:  31000000 
INFO  @ Thu, 13 Apr 2017 18:38:51:  32000000 
INFO  @ Thu, 13 Apr 2017 18:38:53:  33000000 
INFO  @ Thu, 13 Apr 2017 18:38:54:  34000000 
INFO  @ Thu, 13 Apr 2017 18:38:56:  35000000 
INFO  @ Thu, 13 Apr 2017 18:38:57:  36000000 
INFO  @ Thu, 13 Apr 2017 18:38:59:  37000000 
INFO  @ Thu, 13 Apr 2017 18:39:01:  38000000 
INFO  @ Thu, 13 Apr 2017 18:39:02:  39000000 
INFO  @ Thu, 13 Apr 2017 18:39:04:  40000000 
INFO  @ Thu, 13 Apr 2017 18:39:05:  41000000 
INFO  @ Thu, 13 Apr 2017 18:39:07:  42000000 
INFO  @ Thu, 13 Apr 2017 18:39:08:  43000000 
INFO  @ Thu, 13 Apr 2017 18:39:10:  44000000 
INFO  @ Thu, 13 Apr 2017 18:39:11:  45000000 
INFO  @ Thu, 13 Apr 2017 18:39:13:  46000000 
INFO  @ Thu, 13 Apr 2017 18:39:14:  47000000 
INFO  @ Thu, 13 Apr 2017 18:39:16:  48000000 
INFO  @ Thu, 13 Apr 2017 18:39:17:  49000000 
INFO  @ Thu, 13 Apr 2017 18:39:19:  50000000 
INFO  @ Thu, 13 Apr 2017 18:39:21:  51000000 
INFO  @ Thu, 13 Apr 2017 18:39:22:  52000000 
INFO  @ Thu, 13 Apr 2017 18:39:24:  53000000 
INFO  @ Thu, 13 Apr 2017 18:39:25:  54000000 
INFO  @ Thu, 13 Apr 2017 18:39:29: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:39:31:  1000000 
INFO  @ Thu, 13 Apr 2017 18:39:32:  2000000 
INFO  @ Thu, 13 Apr 2017 18:39:33:  3000000 
INFO  @ Thu, 13 Apr 2017 18:39:35:  4000000 
INFO  @ Thu, 13 Apr 2017 18:39:36:  5000000 
INFO  @ Thu, 13 Apr 2017 18:39:38:  6000000 
INFO  @ Thu, 13 Apr 2017 18:39:39:  7000000 
INFO  @ Thu, 13 Apr 2017 18:39:40:  8000000 
INFO  @ Thu, 13 Apr 2017 18:39:42:  9000000 
INFO  @ Thu, 13 Apr 2017 18:39:43:  10000000 
INFO  @ Thu, 13 Apr 2017 18:39:45:  11000000 
INFO  @ Thu, 13 Apr 2017 18:39:46:  12000000 
INFO  @ Thu, 13 Apr 2017 18:39:48:  13000000 
INFO  @ Thu, 13 Apr 2017 18:39:49:  14000000 
INFO  @ Thu, 13 Apr 2017 18:39:50:  15000000 
INFO  @ Thu, 13 Apr 2017 18:39:52:  16000000 
INFO  @ Thu, 13 Apr 2017 18:39:53:  17000000 
INFO  @ Thu, 13 Apr 2017 18:39:55:  18000000 
INFO  @ Thu, 13 Apr 2017 18:39:56:  19000000 
INFO  @ Thu, 13 Apr 2017 18:39:58:  20000000 
INFO  @ Thu, 13 Apr 2017 18:39:59:  21000000 
INFO  @ Thu, 13 Apr 2017 18:40:00:  22000000 
INFO  @ Thu, 13 Apr 2017 18:40:02:  23000000 
INFO  @ Thu, 13 Apr 2017 18:40:03:  24000000 
INFO  @ Thu, 13 Apr 2017 18:40:05:  25000000 
INFO  @ Thu, 13 Apr 2017 18:40:06:  26000000 
INFO  @ Thu, 13 Apr 2017 18:40:08:  27000000 
INFO  @ Thu, 13 Apr 2017 18:40:09:  28000000 
INFO  @ Thu, 13 Apr 2017 18:40:10:  29000000 
INFO  @ Thu, 13 Apr 2017 18:40:12:  30000000 
INFO  @ Thu, 13 Apr 2017 18:40:13:  31000000 
INFO  @ Thu, 13 Apr 2017 18:40:15:  32000000 
INFO  @ Thu, 13 Apr 2017 18:40:16:  33000000 
INFO  @ Thu, 13 Apr 2017 18:40:18:  34000000 
INFO  @ Thu, 13 Apr 2017 18:40:19:  35000000 
INFO  @ Thu, 13 Apr 2017 18:40:20:  36000000 
INFO  @ Thu, 13 Apr 2017 18:40:22:  37000000 
INFO  @ Thu, 13 Apr 2017 18:40:23:  38000000 
INFO  @ Thu, 13 Apr 2017 18:40:25:  39000000 
INFO  @ Thu, 13 Apr 2017 18:40:26:  40000000 
INFO  @ Thu, 13 Apr 2017 18:40:28:  41000000 
INFO  @ Thu, 13 Apr 2017 18:40:29:  42000000 
INFO  @ Thu, 13 Apr 2017 18:40:30:  43000000 
INFO  @ Thu, 13 Apr 2017 18:40:32:  44000000 
INFO  @ Thu, 13 Apr 2017 18:40:33:  45000000 
INFO  @ Thu, 13 Apr 2017 18:40:35:  46000000 
INFO  @ Thu, 13 Apr 2017 18:40:36:  47000000 
INFO  @ Thu, 13 Apr 2017 18:40:38:  48000000 
INFO  @ Thu, 13 Apr 2017 18:40:39:  49000000 
INFO  @ Thu, 13 Apr 2017 18:40:40:  50000000 
INFO  @ Thu, 13 Apr 2017 18:40:42:  51000000 
INFO  @ Thu, 13 Apr 2017 18:40:43:  52000000 
INFO  @ Thu, 13 Apr 2017 18:40:45:  53000000 
INFO  @ Thu, 13 Apr 2017 18:40:46:  54000000 
INFO  @ Thu, 13 Apr 2017 18:40:48:  55000000 
INFO  @ Thu, 13 Apr 2017 18:40:49:  56000000 
INFO  @ Thu, 13 Apr 2017 18:40:50:  57000000 
INFO  @ Thu, 13 Apr 2017 18:40:52:  58000000 
INFO  @ Thu, 13 Apr 2017 18:40:53:  59000000 
INFO  @ Thu, 13 Apr 2017 18:40:55:  60000000 
INFO  @ Thu, 13 Apr 2017 18:40:56:  61000000 
INFO  @ Thu, 13 Apr 2017 18:40:58:  62000000 
INFO  @ Thu, 13 Apr 2017 18:40:59:  63000000 
INFO  @ Thu, 13 Apr 2017 18:41:00:  64000000 
INFO  @ Thu, 13 Apr 2017 18:41:02:  65000000 
INFO  @ Thu, 13 Apr 2017 18:41:03:  66000000 
INFO  @ Thu, 13 Apr 2017 18:41:05:  67000000 
INFO  @ Thu, 13 Apr 2017 18:41:06:  68000000 
INFO  @ Thu, 13 Apr 2017 18:41:08:  69000000 
INFO  @ Thu, 13 Apr 2017 18:41:09:  70000000 
INFO  @ Thu, 13 Apr 2017 18:41:11:  71000000 
INFO  @ Thu, 13 Apr 2017 18:41:12:  72000000 
INFO  @ Thu, 13 Apr 2017 18:41:13:  73000000 
INFO  @ Thu, 13 Apr 2017 18:41:15:  74000000 
INFO  @ Thu, 13 Apr 2017 18:41:16:  75000000 
INFO  @ Thu, 13 Apr 2017 18:41:18:  76000000 
INFO  @ Thu, 13 Apr 2017 18:41:19:  77000000 
INFO  @ Thu, 13 Apr 2017 18:41:21:  78000000 
INFO  @ Thu, 13 Apr 2017 18:41:22:  79000000 
INFO  @ Thu, 13 Apr 2017 18:41:23:  80000000 
INFO  @ Thu, 13 Apr 2017 18:41:25:  81000000 
INFO  @ Thu, 13 Apr 2017 18:41:26:  82000000 
INFO  @ Thu, 13 Apr 2017 18:41:28:  83000000 
INFO  @ Thu, 13 Apr 2017 18:41:29:  84000000 
INFO  @ Thu, 13 Apr 2017 18:41:31:  85000000 
INFO  @ Thu, 13 Apr 2017 18:41:32:  86000000 
INFO  @ Thu, 13 Apr 2017 18:41:33:  87000000 
INFO  @ Thu, 13 Apr 2017 18:41:35:  88000000 
INFO  @ Thu, 13 Apr 2017 18:41:36:  89000000 
INFO  @ Thu, 13 Apr 2017 18:41:38:  90000000 
INFO  @ Thu, 13 Apr 2017 18:41:39:  91000000 
INFO  @ Thu, 13 Apr 2017 18:41:41:  92000000 
INFO  @ Thu, 13 Apr 2017 18:41:42:  93000000 
INFO  @ Thu, 13 Apr 2017 18:41:43:  94000000 
INFO  @ Thu, 13 Apr 2017 18:41:45:  95000000 
INFO  @ Thu, 13 Apr 2017 18:41:46:  96000000 
INFO  @ Thu, 13 Apr 2017 18:41:48:  97000000 
INFO  @ Thu, 13 Apr 2017 18:41:49:  98000000 
INFO  @ Thu, 13 Apr 2017 18:41:50:  99000000 
INFO  @ Thu, 13 Apr 2017 18:41:52: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:41:52: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:41:52: #1  total tags in treatment: 54211426 
INFO  @ Thu, 13 Apr 2017 18:41:52: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:41:52: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:41:52: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:41:52: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:41:52: #2 Use 213 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:41:52: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:41:52: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:41:52: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 18:47:19: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 18:51:22: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 18:51:23: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 18:51:24: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 18:51:24: Done!

Num	3
ID	task.callpeak_macs2.macs2_g_b_ppr2.line_155.id_12
Name	macs2 g/b ppr2
Thread	thread_Root
PID	46969

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

Start	2017-04-13 18:37:51
End	2017-04-13 18:51:37
Elapsed	00:13:45
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 213 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
48754 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:38:16: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 213 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:38:16: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:38:16: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:38:17:  1000000 
INFO  @ Thu, 13 Apr 2017 18:38:19:  2000000 
INFO  @ Thu, 13 Apr 2017 18:38:20:  3000000 
INFO  @ Thu, 13 Apr 2017 18:38:22:  4000000 
INFO  @ Thu, 13 Apr 2017 18:38:23:  5000000 
INFO  @ Thu, 13 Apr 2017 18:38:25:  6000000 
INFO  @ Thu, 13 Apr 2017 18:38:26:  7000000 
INFO  @ Thu, 13 Apr 2017 18:38:28:  8000000 
INFO  @ Thu, 13 Apr 2017 18:38:29:  9000000 
INFO  @ Thu, 13 Apr 2017 18:38:31:  10000000 
INFO  @ Thu, 13 Apr 2017 18:38:33:  11000000 
INFO  @ Thu, 13 Apr 2017 18:38:34:  12000000 
INFO  @ Thu, 13 Apr 2017 18:38:36:  13000000 
INFO  @ Thu, 13 Apr 2017 18:38:37:  14000000 
INFO  @ Thu, 13 Apr 2017 18:38:39:  15000000 
INFO  @ Thu, 13 Apr 2017 18:38:40:  16000000 
INFO  @ Thu, 13 Apr 2017 18:38:42:  17000000 
INFO  @ Thu, 13 Apr 2017 18:38:43:  18000000 
INFO  @ Thu, 13 Apr 2017 18:38:45:  19000000 
INFO  @ Thu, 13 Apr 2017 18:38:46:  20000000 
INFO  @ Thu, 13 Apr 2017 18:38:48:  21000000 
INFO  @ Thu, 13 Apr 2017 18:38:49:  22000000 
INFO  @ Thu, 13 Apr 2017 18:38:51:  23000000 
INFO  @ Thu, 13 Apr 2017 18:38:52:  24000000 
INFO  @ Thu, 13 Apr 2017 18:38:54:  25000000 
INFO  @ Thu, 13 Apr 2017 18:38:55:  26000000 
INFO  @ Thu, 13 Apr 2017 18:38:57:  27000000 
INFO  @ Thu, 13 Apr 2017 18:38:58:  28000000 
INFO  @ Thu, 13 Apr 2017 18:39:00:  29000000 
INFO  @ Thu, 13 Apr 2017 18:39:01:  30000000 
INFO  @ Thu, 13 Apr 2017 18:39:03:  31000000 
INFO  @ Thu, 13 Apr 2017 18:39:04:  32000000 
INFO  @ Thu, 13 Apr 2017 18:39:06:  33000000 
INFO  @ Thu, 13 Apr 2017 18:39:08:  34000000 
INFO  @ Thu, 13 Apr 2017 18:39:09:  35000000 
INFO  @ Thu, 13 Apr 2017 18:39:11:  36000000 
INFO  @ Thu, 13 Apr 2017 18:39:12:  37000000 
INFO  @ Thu, 13 Apr 2017 18:39:14:  38000000 
INFO  @ Thu, 13 Apr 2017 18:39:15:  39000000 
INFO  @ Thu, 13 Apr 2017 18:39:17:  40000000 
INFO  @ Thu, 13 Apr 2017 18:39:18:  41000000 
INFO  @ Thu, 13 Apr 2017 18:39:20:  42000000 
INFO  @ Thu, 13 Apr 2017 18:39:21:  43000000 
INFO  @ Thu, 13 Apr 2017 18:39:23:  44000000 
INFO  @ Thu, 13 Apr 2017 18:39:24:  45000000 
INFO  @ Thu, 13 Apr 2017 18:39:26:  46000000 
INFO  @ Thu, 13 Apr 2017 18:39:27:  47000000 
INFO  @ Thu, 13 Apr 2017 18:39:29:  48000000 
INFO  @ Thu, 13 Apr 2017 18:39:30:  49000000 
INFO  @ Thu, 13 Apr 2017 18:39:32:  50000000 
INFO  @ Thu, 13 Apr 2017 18:39:33:  51000000 
INFO  @ Thu, 13 Apr 2017 18:39:35:  52000000 
INFO  @ Thu, 13 Apr 2017 18:39:37:  53000000 
INFO  @ Thu, 13 Apr 2017 18:39:38:  54000000 
INFO  @ Thu, 13 Apr 2017 18:39:42: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:39:43:  1000000 
INFO  @ Thu, 13 Apr 2017 18:39:45:  2000000 
INFO  @ Thu, 13 Apr 2017 18:39:46:  3000000 
INFO  @ Thu, 13 Apr 2017 18:39:47:  4000000 
INFO  @ Thu, 13 Apr 2017 18:39:49:  5000000 
INFO  @ Thu, 13 Apr 2017 18:39:50:  6000000 
INFO  @ Thu, 13 Apr 2017 18:39:52:  7000000 
INFO  @ Thu, 13 Apr 2017 18:39:53:  8000000 
INFO  @ Thu, 13 Apr 2017 18:39:54:  9000000 
INFO  @ Thu, 13 Apr 2017 18:39:56:  10000000 
INFO  @ Thu, 13 Apr 2017 18:39:57:  11000000 
INFO  @ Thu, 13 Apr 2017 18:39:59:  12000000 
INFO  @ Thu, 13 Apr 2017 18:40:00:  13000000 
INFO  @ Thu, 13 Apr 2017 18:40:01:  14000000 
INFO  @ Thu, 13 Apr 2017 18:40:03:  15000000 
INFO  @ Thu, 13 Apr 2017 18:40:04:  16000000 
INFO  @ Thu, 13 Apr 2017 18:40:05:  17000000 
INFO  @ Thu, 13 Apr 2017 18:40:07:  18000000 
INFO  @ Thu, 13 Apr 2017 18:40:08:  19000000 
INFO  @ Thu, 13 Apr 2017 18:40:10:  20000000 
INFO  @ Thu, 13 Apr 2017 18:40:11:  21000000 
INFO  @ Thu, 13 Apr 2017 18:40:12:  22000000 
INFO  @ Thu, 13 Apr 2017 18:40:14:  23000000 
INFO  @ Thu, 13 Apr 2017 18:40:15:  24000000 
INFO  @ Thu, 13 Apr 2017 18:40:17:  25000000 
INFO  @ Thu, 13 Apr 2017 18:40:18:  26000000 
INFO  @ Thu, 13 Apr 2017 18:40:19:  27000000 
INFO  @ Thu, 13 Apr 2017 18:40:21:  28000000 
INFO  @ Thu, 13 Apr 2017 18:40:22:  29000000 
INFO  @ Thu, 13 Apr 2017 18:40:23:  30000000 
INFO  @ Thu, 13 Apr 2017 18:40:25:  31000000 
INFO  @ Thu, 13 Apr 2017 18:40:26:  32000000 
INFO  @ Thu, 13 Apr 2017 18:40:28:  33000000 
INFO  @ Thu, 13 Apr 2017 18:40:29:  34000000 
INFO  @ Thu, 13 Apr 2017 18:40:30:  35000000 
INFO  @ Thu, 13 Apr 2017 18:40:32:  36000000 
INFO  @ Thu, 13 Apr 2017 18:40:33:  37000000 
INFO  @ Thu, 13 Apr 2017 18:40:35:  38000000 
INFO  @ Thu, 13 Apr 2017 18:40:36:  39000000 
INFO  @ Thu, 13 Apr 2017 18:40:37:  40000000 
INFO  @ Thu, 13 Apr 2017 18:40:39:  41000000 
INFO  @ Thu, 13 Apr 2017 18:40:40:  42000000 
INFO  @ Thu, 13 Apr 2017 18:40:41:  43000000 
INFO  @ Thu, 13 Apr 2017 18:40:43:  44000000 
INFO  @ Thu, 13 Apr 2017 18:40:44:  45000000 
INFO  @ Thu, 13 Apr 2017 18:40:46:  46000000 
INFO  @ Thu, 13 Apr 2017 18:40:47:  47000000 
INFO  @ Thu, 13 Apr 2017 18:40:48:  48000000 
INFO  @ Thu, 13 Apr 2017 18:40:50:  49000000 
INFO  @ Thu, 13 Apr 2017 18:40:51:  50000000 
INFO  @ Thu, 13 Apr 2017 18:40:53:  51000000 
INFO  @ Thu, 13 Apr 2017 18:40:54:  52000000 
INFO  @ Thu, 13 Apr 2017 18:40:55:  53000000 
INFO  @ Thu, 13 Apr 2017 18:40:57:  54000000 
INFO  @ Thu, 13 Apr 2017 18:40:58:  55000000 
INFO  @ Thu, 13 Apr 2017 18:41:00:  56000000 
INFO  @ Thu, 13 Apr 2017 18:41:01:  57000000 
INFO  @ Thu, 13 Apr 2017 18:41:02:  58000000 
INFO  @ Thu, 13 Apr 2017 18:41:04:  59000000 
INFO  @ Thu, 13 Apr 2017 18:41:05:  60000000 
INFO  @ Thu, 13 Apr 2017 18:41:06:  61000000 
INFO  @ Thu, 13 Apr 2017 18:41:08:  62000000 
INFO  @ Thu, 13 Apr 2017 18:41:09:  63000000 
INFO  @ Thu, 13 Apr 2017 18:41:11:  64000000 
INFO  @ Thu, 13 Apr 2017 18:41:12:  65000000 
INFO  @ Thu, 13 Apr 2017 18:41:13:  66000000 
INFO  @ Thu, 13 Apr 2017 18:41:15:  67000000 
INFO  @ Thu, 13 Apr 2017 18:41:16:  68000000 
INFO  @ Thu, 13 Apr 2017 18:41:18:  69000000 
INFO  @ Thu, 13 Apr 2017 18:41:19:  70000000 
INFO  @ Thu, 13 Apr 2017 18:41:20:  71000000 
INFO  @ Thu, 13 Apr 2017 18:41:22:  72000000 
INFO  @ Thu, 13 Apr 2017 18:41:23:  73000000 
INFO  @ Thu, 13 Apr 2017 18:41:25:  74000000 
INFO  @ Thu, 13 Apr 2017 18:41:26:  75000000 
INFO  @ Thu, 13 Apr 2017 18:41:27:  76000000 
INFO  @ Thu, 13 Apr 2017 18:41:29:  77000000 
INFO  @ Thu, 13 Apr 2017 18:41:30:  78000000 
INFO  @ Thu, 13 Apr 2017 18:41:31:  79000000 
INFO  @ Thu, 13 Apr 2017 18:41:33:  80000000 
INFO  @ Thu, 13 Apr 2017 18:41:34:  81000000 
INFO  @ Thu, 13 Apr 2017 18:41:36:  82000000 
INFO  @ Thu, 13 Apr 2017 18:41:37:  83000000 
INFO  @ Thu, 13 Apr 2017 18:41:38:  84000000 
INFO  @ Thu, 13 Apr 2017 18:41:40:  85000000 
INFO  @ Thu, 13 Apr 2017 18:41:41:  86000000 
INFO  @ Thu, 13 Apr 2017 18:41:43:  87000000 
INFO  @ Thu, 13 Apr 2017 18:41:44:  88000000 
INFO  @ Thu, 13 Apr 2017 18:41:45:  89000000 
INFO  @ Thu, 13 Apr 2017 18:41:47:  90000000 
INFO  @ Thu, 13 Apr 2017 18:41:48:  91000000 
INFO  @ Thu, 13 Apr 2017 18:41:50:  92000000 
INFO  @ Thu, 13 Apr 2017 18:41:51:  93000000 
INFO  @ Thu, 13 Apr 2017 18:41:52:  94000000 
INFO  @ Thu, 13 Apr 2017 18:41:54:  95000000 
INFO  @ Thu, 13 Apr 2017 18:41:55:  96000000 
INFO  @ Thu, 13 Apr 2017 18:41:56:  97000000 
INFO  @ Thu, 13 Apr 2017 18:41:58:  98000000 
INFO  @ Thu, 13 Apr 2017 18:41:59:  99000000 
INFO  @ Thu, 13 Apr 2017 18:42:01: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:42:01: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:42:01: #1  total tags in treatment: 54211426 
INFO  @ Thu, 13 Apr 2017 18:42:01: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:42:01: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:42:01: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:42:01: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:42:01: #2 Use 213 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:42:01: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:42:01: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:42:01: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 18:47:26: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 18:51:29: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 18:51:30: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 18:51:31: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 18:51:32: Done!

Num	4
ID	task.callpeak_macs2.macs2_g_b_rep1.line_155.id_13
Name	macs2 g/b rep1
Thread	thread_Root
PID	46975

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

Start	2017-04-13 18:37:54
End	2017-04-13 18:52:14
Elapsed	00:14:20
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep1/ENCFF558PHY.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/rep1/ENCFF558PHY.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 215 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
48756 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:38:16: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep1/ENCFF558PHY.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 215 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep1/ENCFF558PHY.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:38:16: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:38:16: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:38:17:  1000000 
INFO  @ Thu, 13 Apr 2017 18:38:19:  2000000 
INFO  @ Thu, 13 Apr 2017 18:38:21:  3000000 
INFO  @ Thu, 13 Apr 2017 18:38:22:  4000000 
INFO  @ Thu, 13 Apr 2017 18:38:24:  5000000 
INFO  @ Thu, 13 Apr 2017 18:38:26:  6000000 
INFO  @ Thu, 13 Apr 2017 18:38:27:  7000000 
INFO  @ Thu, 13 Apr 2017 18:38:29:  8000000 
INFO  @ Thu, 13 Apr 2017 18:38:30:  9000000 
INFO  @ Thu, 13 Apr 2017 18:38:32:  10000000 
INFO  @ Thu, 13 Apr 2017 18:38:34:  11000000 
INFO  @ Thu, 13 Apr 2017 18:38:35:  12000000 
INFO  @ Thu, 13 Apr 2017 18:38:37:  13000000 
INFO  @ Thu, 13 Apr 2017 18:38:38:  14000000 
INFO  @ Thu, 13 Apr 2017 18:38:40:  15000000 
INFO  @ Thu, 13 Apr 2017 18:38:41:  16000000 
INFO  @ Thu, 13 Apr 2017 18:38:43:  17000000 
INFO  @ Thu, 13 Apr 2017 18:38:44:  18000000 
INFO  @ Thu, 13 Apr 2017 18:38:46:  19000000 
INFO  @ Thu, 13 Apr 2017 18:38:47:  20000000 
INFO  @ Thu, 13 Apr 2017 18:38:49:  21000000 
INFO  @ Thu, 13 Apr 2017 18:38:50:  22000000 
INFO  @ Thu, 13 Apr 2017 18:38:52:  23000000 
INFO  @ Thu, 13 Apr 2017 18:38:53:  24000000 
INFO  @ Thu, 13 Apr 2017 18:38:55:  25000000 
INFO  @ Thu, 13 Apr 2017 18:38:56:  26000000 
INFO  @ Thu, 13 Apr 2017 18:38:58:  27000000 
INFO  @ Thu, 13 Apr 2017 18:38:59:  28000000 
INFO  @ Thu, 13 Apr 2017 18:39:01:  29000000 
INFO  @ Thu, 13 Apr 2017 18:39:02:  30000000 
INFO  @ Thu, 13 Apr 2017 18:39:04:  31000000 
INFO  @ Thu, 13 Apr 2017 18:39:05:  32000000 
INFO  @ Thu, 13 Apr 2017 18:39:07:  33000000 
INFO  @ Thu, 13 Apr 2017 18:39:08:  34000000 
INFO  @ Thu, 13 Apr 2017 18:39:10:  35000000 
INFO  @ Thu, 13 Apr 2017 18:39:12:  36000000 
INFO  @ Thu, 13 Apr 2017 18:39:14:  37000000 
INFO  @ Thu, 13 Apr 2017 18:39:15:  38000000 
INFO  @ Thu, 13 Apr 2017 18:39:17:  39000000 
INFO  @ Thu, 13 Apr 2017 18:39:18:  40000000 
INFO  @ Thu, 13 Apr 2017 18:39:20:  41000000 
INFO  @ Thu, 13 Apr 2017 18:39:21:  42000000 
INFO  @ Thu, 13 Apr 2017 18:39:23:  43000000 
INFO  @ Thu, 13 Apr 2017 18:39:25:  44000000 
INFO  @ Thu, 13 Apr 2017 18:39:26:  45000000 
INFO  @ Thu, 13 Apr 2017 18:39:28:  46000000 
INFO  @ Thu, 13 Apr 2017 18:39:30:  47000000 
INFO  @ Thu, 13 Apr 2017 18:39:31:  48000000 
INFO  @ Thu, 13 Apr 2017 18:39:33:  49000000 
INFO  @ Thu, 13 Apr 2017 18:39:34:  50000000 
INFO  @ Thu, 13 Apr 2017 18:39:36:  51000000 
INFO  @ Thu, 13 Apr 2017 18:39:38:  52000000 
INFO  @ Thu, 13 Apr 2017 18:39:39:  53000000 
INFO  @ Thu, 13 Apr 2017 18:39:41:  54000000 
INFO  @ Thu, 13 Apr 2017 18:39:45: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:39:47:  1000000 
INFO  @ Thu, 13 Apr 2017 18:39:48:  2000000 
INFO  @ Thu, 13 Apr 2017 18:39:50:  3000000 
INFO  @ Thu, 13 Apr 2017 18:39:51:  4000000 
INFO  @ Thu, 13 Apr 2017 18:39:52:  5000000 
INFO  @ Thu, 13 Apr 2017 18:39:54:  6000000 
INFO  @ Thu, 13 Apr 2017 18:39:55:  7000000 
INFO  @ Thu, 13 Apr 2017 18:39:57:  8000000 
INFO  @ Thu, 13 Apr 2017 18:39:58:  9000000 
INFO  @ Thu, 13 Apr 2017 18:39:59:  10000000 
INFO  @ Thu, 13 Apr 2017 18:40:01:  11000000 
INFO  @ Thu, 13 Apr 2017 18:40:02:  12000000 
INFO  @ Thu, 13 Apr 2017 18:40:03:  13000000 
INFO  @ Thu, 13 Apr 2017 18:40:05:  14000000 
INFO  @ Thu, 13 Apr 2017 18:40:06:  15000000 
INFO  @ Thu, 13 Apr 2017 18:40:08:  16000000 
INFO  @ Thu, 13 Apr 2017 18:40:09:  17000000 
INFO  @ Thu, 13 Apr 2017 18:40:10:  18000000 
INFO  @ Thu, 13 Apr 2017 18:40:12:  19000000 
INFO  @ Thu, 13 Apr 2017 18:40:13:  20000000 
INFO  @ Thu, 13 Apr 2017 18:40:15:  21000000 
INFO  @ Thu, 13 Apr 2017 18:40:16:  22000000 
INFO  @ Thu, 13 Apr 2017 18:40:18:  23000000 
INFO  @ Thu, 13 Apr 2017 18:40:19:  24000000 
INFO  @ Thu, 13 Apr 2017 18:40:21:  25000000 
INFO  @ Thu, 13 Apr 2017 18:40:22:  26000000 
INFO  @ Thu, 13 Apr 2017 18:40:23:  27000000 
INFO  @ Thu, 13 Apr 2017 18:40:25:  28000000 
INFO  @ Thu, 13 Apr 2017 18:40:26:  29000000 
INFO  @ Thu, 13 Apr 2017 18:40:27:  30000000 
INFO  @ Thu, 13 Apr 2017 18:40:29:  31000000 
INFO  @ Thu, 13 Apr 2017 18:40:30:  32000000 
INFO  @ Thu, 13 Apr 2017 18:40:32:  33000000 
INFO  @ Thu, 13 Apr 2017 18:40:33:  34000000 
INFO  @ Thu, 13 Apr 2017 18:40:35:  35000000 
INFO  @ Thu, 13 Apr 2017 18:40:36:  36000000 
INFO  @ Thu, 13 Apr 2017 18:40:37:  37000000 
INFO  @ Thu, 13 Apr 2017 18:40:39:  38000000 
INFO  @ Thu, 13 Apr 2017 18:40:40:  39000000 
INFO  @ Thu, 13 Apr 2017 18:40:42:  40000000 
INFO  @ Thu, 13 Apr 2017 18:40:43:  41000000 
INFO  @ Thu, 13 Apr 2017 18:40:45:  42000000 
INFO  @ Thu, 13 Apr 2017 18:40:46:  43000000 
INFO  @ Thu, 13 Apr 2017 18:40:47:  44000000 
INFO  @ Thu, 13 Apr 2017 18:40:49:  45000000 
INFO  @ Thu, 13 Apr 2017 18:40:51:  46000000 
INFO  @ Thu, 13 Apr 2017 18:40:52:  47000000 
INFO  @ Thu, 13 Apr 2017 18:40:53:  48000000 
INFO  @ Thu, 13 Apr 2017 18:40:55:  49000000 
INFO  @ Thu, 13 Apr 2017 18:40:56:  50000000 
INFO  @ Thu, 13 Apr 2017 18:40:57:  51000000 
INFO  @ Thu, 13 Apr 2017 18:40:59:  52000000 
INFO  @ Thu, 13 Apr 2017 18:41:00:  53000000 
INFO  @ Thu, 13 Apr 2017 18:41:02:  54000000 
INFO  @ Thu, 13 Apr 2017 18:41:03:  55000000 
INFO  @ Thu, 13 Apr 2017 18:41:05:  56000000 
INFO  @ Thu, 13 Apr 2017 18:41:07:  57000000 
INFO  @ Thu, 13 Apr 2017 18:41:08:  58000000 
INFO  @ Thu, 13 Apr 2017 18:41:10:  59000000 
INFO  @ Thu, 13 Apr 2017 18:41:11:  60000000 
INFO  @ Thu, 13 Apr 2017 18:41:12:  61000000 
INFO  @ Thu, 13 Apr 2017 18:41:14:  62000000 
INFO  @ Thu, 13 Apr 2017 18:41:15:  63000000 
INFO  @ Thu, 13 Apr 2017 18:41:17:  64000000 
INFO  @ Thu, 13 Apr 2017 18:41:18:  65000000 
INFO  @ Thu, 13 Apr 2017 18:41:19:  66000000 
INFO  @ Thu, 13 Apr 2017 18:41:21:  67000000 
INFO  @ Thu, 13 Apr 2017 18:41:22:  68000000 
INFO  @ Thu, 13 Apr 2017 18:41:24:  69000000 
INFO  @ Thu, 13 Apr 2017 18:41:25:  70000000 
INFO  @ Thu, 13 Apr 2017 18:41:26:  71000000 
INFO  @ Thu, 13 Apr 2017 18:41:28:  72000000 
INFO  @ Thu, 13 Apr 2017 18:41:29:  73000000 
INFO  @ Thu, 13 Apr 2017 18:41:30:  74000000 
INFO  @ Thu, 13 Apr 2017 18:41:32:  75000000 
INFO  @ Thu, 13 Apr 2017 18:41:33:  76000000 
INFO  @ Thu, 13 Apr 2017 18:41:35:  77000000 
INFO  @ Thu, 13 Apr 2017 18:41:36:  78000000 
INFO  @ Thu, 13 Apr 2017 18:41:38:  79000000 
INFO  @ Thu, 13 Apr 2017 18:41:39:  80000000 
INFO  @ Thu, 13 Apr 2017 18:41:40:  81000000 
INFO  @ Thu, 13 Apr 2017 18:41:42:  82000000 
INFO  @ Thu, 13 Apr 2017 18:41:43:  83000000 
INFO  @ Thu, 13 Apr 2017 18:41:45:  84000000 
INFO  @ Thu, 13 Apr 2017 18:41:46:  85000000 
INFO  @ Thu, 13 Apr 2017 18:41:47:  86000000 
INFO  @ Thu, 13 Apr 2017 18:41:49:  87000000 
INFO  @ Thu, 13 Apr 2017 18:41:50:  88000000 
INFO  @ Thu, 13 Apr 2017 18:41:52:  89000000 
INFO  @ Thu, 13 Apr 2017 18:41:53:  90000000 
INFO  @ Thu, 13 Apr 2017 18:41:54:  91000000 
INFO  @ Thu, 13 Apr 2017 18:41:56:  92000000 
INFO  @ Thu, 13 Apr 2017 18:41:57:  93000000 
INFO  @ Thu, 13 Apr 2017 18:41:58:  94000000 
INFO  @ Thu, 13 Apr 2017 18:42:00:  95000000 
INFO  @ Thu, 13 Apr 2017 18:42:01:  96000000 
INFO  @ Thu, 13 Apr 2017 18:42:03:  97000000 
INFO  @ Thu, 13 Apr 2017 18:42:04:  98000000 
INFO  @ Thu, 13 Apr 2017 18:42:05:  99000000 
INFO  @ Thu, 13 Apr 2017 18:42:07: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:42:07: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:42:07: #1  total tags in treatment: 54689796 
INFO  @ Thu, 13 Apr 2017 18:42:07: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:42:07: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:42:07: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:42:07: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:42:07: #2 Use 215 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:42:07: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:42:07: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:42:07: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 18:47:49: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 18:52:07: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 18:52:08: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 18:52:09: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 18:52:10: 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	46981

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

Start	2017-04-13 18:37:57
End	2017-04-13 18:55:09
Elapsed	00:17:12
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 215 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
14457 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:38:17: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 215 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:38:17: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:38:17: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:38:19:  1000000 
INFO  @ Thu, 13 Apr 2017 18:38:21:  2000000 
INFO  @ Thu, 13 Apr 2017 18:38:23:  3000000 
INFO  @ Thu, 13 Apr 2017 18:38:25:  4000000 
INFO  @ Thu, 13 Apr 2017 18:38:27:  5000000 
INFO  @ Thu, 13 Apr 2017 18:38:29:  6000000 
INFO  @ Thu, 13 Apr 2017 18:38:31:  7000000 
INFO  @ Thu, 13 Apr 2017 18:38:33:  8000000 
INFO  @ Thu, 13 Apr 2017 18:38:35:  9000000 
INFO  @ Thu, 13 Apr 2017 18:38:37:  10000000 
INFO  @ Thu, 13 Apr 2017 18:38:39:  11000000 
INFO  @ Thu, 13 Apr 2017 18:38:41:  12000000 
INFO  @ Thu, 13 Apr 2017 18:38:43:  13000000 
INFO  @ Thu, 13 Apr 2017 18:38:45:  14000000 
INFO  @ Thu, 13 Apr 2017 18:38:47:  15000000 
INFO  @ Thu, 13 Apr 2017 18:38:49:  16000000 
INFO  @ Thu, 13 Apr 2017 18:38:51:  17000000 
INFO  @ Thu, 13 Apr 2017 18:38:53:  18000000 
INFO  @ Thu, 13 Apr 2017 18:38:55:  19000000 
INFO  @ Thu, 13 Apr 2017 18:38:57:  20000000 
INFO  @ Thu, 13 Apr 2017 18:38:59:  21000000 
INFO  @ Thu, 13 Apr 2017 18:39:01:  22000000 
INFO  @ Thu, 13 Apr 2017 18:39:03:  23000000 
INFO  @ Thu, 13 Apr 2017 18:39:05:  24000000 
INFO  @ Thu, 13 Apr 2017 18:39:07:  25000000 
INFO  @ Thu, 13 Apr 2017 18:39:09:  26000000 
INFO  @ Thu, 13 Apr 2017 18:39:11:  27000000 
INFO  @ Thu, 13 Apr 2017 18:39:14: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:39:16:  1000000 
INFO  @ Thu, 13 Apr 2017 18:39:18:  2000000 
INFO  @ Thu, 13 Apr 2017 18:39:20:  3000000 
INFO  @ Thu, 13 Apr 2017 18:39:22:  4000000 
INFO  @ Thu, 13 Apr 2017 18:39:24:  5000000 
INFO  @ Thu, 13 Apr 2017 18:39:26:  6000000 
INFO  @ Thu, 13 Apr 2017 18:39:28:  7000000 
INFO  @ Thu, 13 Apr 2017 18:39:29:  8000000 
INFO  @ Thu, 13 Apr 2017 18:39:31:  9000000 
INFO  @ Thu, 13 Apr 2017 18:39:33:  10000000 
INFO  @ Thu, 13 Apr 2017 18:39:35:  11000000 
INFO  @ Thu, 13 Apr 2017 18:39:37:  12000000 
INFO  @ Thu, 13 Apr 2017 18:39:39:  13000000 
INFO  @ Thu, 13 Apr 2017 18:39:41:  14000000 
INFO  @ Thu, 13 Apr 2017 18:39:43:  15000000 
INFO  @ Thu, 13 Apr 2017 18:39:45:  16000000 
INFO  @ Thu, 13 Apr 2017 18:39:46:  17000000 
INFO  @ Thu, 13 Apr 2017 18:39:48:  18000000 
INFO  @ Thu, 13 Apr 2017 18:39:50:  19000000 
INFO  @ Thu, 13 Apr 2017 18:39:52:  20000000 
INFO  @ Thu, 13 Apr 2017 18:39:54:  21000000 
INFO  @ Thu, 13 Apr 2017 18:39:56:  22000000 
INFO  @ Thu, 13 Apr 2017 18:39:58:  23000000 
INFO  @ Thu, 13 Apr 2017 18:40:00:  24000000 
INFO  @ Thu, 13 Apr 2017 18:40:02:  25000000 
INFO  @ Thu, 13 Apr 2017 18:40:03:  26000000 
INFO  @ Thu, 13 Apr 2017 18:40:05:  27000000 
INFO  @ Thu, 13 Apr 2017 18:40:07:  28000000 
INFO  @ Thu, 13 Apr 2017 18:40:09:  29000000 
INFO  @ Thu, 13 Apr 2017 18:40:11:  30000000 
INFO  @ Thu, 13 Apr 2017 18:40:13:  31000000 
INFO  @ Thu, 13 Apr 2017 18:40:15:  32000000 
INFO  @ Thu, 13 Apr 2017 18:40:17:  33000000 
INFO  @ Thu, 13 Apr 2017 18:40:19:  34000000 
INFO  @ Thu, 13 Apr 2017 18:40:20:  35000000 
INFO  @ Thu, 13 Apr 2017 18:40:22:  36000000 
INFO  @ Thu, 13 Apr 2017 18:40:24:  37000000 
INFO  @ Thu, 13 Apr 2017 18:40:26:  38000000 
INFO  @ Thu, 13 Apr 2017 18:40:28:  39000000 
INFO  @ Thu, 13 Apr 2017 18:40:30:  40000000 
INFO  @ Thu, 13 Apr 2017 18:40:32:  41000000 
INFO  @ Thu, 13 Apr 2017 18:40:34:  42000000 
INFO  @ Thu, 13 Apr 2017 18:40:35:  43000000 
INFO  @ Thu, 13 Apr 2017 18:40:37:  44000000 
INFO  @ Thu, 13 Apr 2017 18:40:39:  45000000 
INFO  @ Thu, 13 Apr 2017 18:40:41:  46000000 
INFO  @ Thu, 13 Apr 2017 18:40:43:  47000000 
INFO  @ Thu, 13 Apr 2017 18:40:45:  48000000 
INFO  @ Thu, 13 Apr 2017 18:40:47:  49000000 
INFO  @ Thu, 13 Apr 2017 18:40:48:  50000000 
INFO  @ Thu, 13 Apr 2017 18:40:50:  51000000 
INFO  @ Thu, 13 Apr 2017 18:40:52:  52000000 
INFO  @ Thu, 13 Apr 2017 18:40:54:  53000000 
INFO  @ Thu, 13 Apr 2017 18:40:56:  54000000 
INFO  @ Thu, 13 Apr 2017 18:40:58:  55000000 
INFO  @ Thu, 13 Apr 2017 18:41:00:  56000000 
INFO  @ Thu, 13 Apr 2017 18:41:02:  57000000 
INFO  @ Thu, 13 Apr 2017 18:41:04:  58000000 
INFO  @ Thu, 13 Apr 2017 18:41:06:  59000000 
INFO  @ Thu, 13 Apr 2017 18:41:08:  60000000 
INFO  @ Thu, 13 Apr 2017 18:41:09:  61000000 
INFO  @ Thu, 13 Apr 2017 18:41:11:  62000000 
INFO  @ Thu, 13 Apr 2017 18:41:13:  63000000 
INFO  @ Thu, 13 Apr 2017 18:41:15:  64000000 
INFO  @ Thu, 13 Apr 2017 18:41:17:  65000000 
INFO  @ Thu, 13 Apr 2017 18:41:19:  66000000 
INFO  @ Thu, 13 Apr 2017 18:41:21:  67000000 
INFO  @ Thu, 13 Apr 2017 18:41:23:  68000000 
INFO  @ Thu, 13 Apr 2017 18:41:25:  69000000 
INFO  @ Thu, 13 Apr 2017 18:41:27:  70000000 
INFO  @ Thu, 13 Apr 2017 18:41:29:  71000000 
INFO  @ Thu, 13 Apr 2017 18:41:30:  72000000 
INFO  @ Thu, 13 Apr 2017 18:41:32:  73000000 
INFO  @ Thu, 13 Apr 2017 18:41:34:  74000000 
INFO  @ Thu, 13 Apr 2017 18:41:36:  75000000 
INFO  @ Thu, 13 Apr 2017 18:41:38:  76000000 
INFO  @ Thu, 13 Apr 2017 18:41:40:  77000000 
INFO  @ Thu, 13 Apr 2017 18:41:42:  78000000 
INFO  @ Thu, 13 Apr 2017 18:41:44:  79000000 
INFO  @ Thu, 13 Apr 2017 18:41:46:  80000000 
INFO  @ Thu, 13 Apr 2017 18:41:47:  81000000 
INFO  @ Thu, 13 Apr 2017 18:41:49:  82000000 
INFO  @ Thu, 13 Apr 2017 18:41:51:  83000000 
INFO  @ Thu, 13 Apr 2017 18:41:53:  84000000 
INFO  @ Thu, 13 Apr 2017 18:41:55:  85000000 
INFO  @ Thu, 13 Apr 2017 18:41:57:  86000000 
INFO  @ Thu, 13 Apr 2017 18:41:58:  87000000 
INFO  @ Thu, 13 Apr 2017 18:42:00:  88000000 
INFO  @ Thu, 13 Apr 2017 18:42:02:  89000000 
INFO  @ Thu, 13 Apr 2017 18:42:04:  90000000 
INFO  @ Thu, 13 Apr 2017 18:42:06:  91000000 
INFO  @ Thu, 13 Apr 2017 18:42:08:  92000000 
INFO  @ Thu, 13 Apr 2017 18:42:09:  93000000 
INFO  @ Thu, 13 Apr 2017 18:42:11:  94000000 
INFO  @ Thu, 13 Apr 2017 18:42:13:  95000000 
INFO  @ Thu, 13 Apr 2017 18:42:15:  96000000 
INFO  @ Thu, 13 Apr 2017 18:42:17:  97000000 
INFO  @ Thu, 13 Apr 2017 18:42:19:  98000000 
INFO  @ Thu, 13 Apr 2017 18:42:21:  99000000 
INFO  @ Thu, 13 Apr 2017 18:42:23: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:42:23: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:42:23: #1  total tags in treatment: 27344898 
INFO  @ Thu, 13 Apr 2017 18:42:23: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:42:23: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:42:23: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:42:23: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:42:23: #2 Use 215 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:42:23: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:42:23: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:42:23: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 18:49:10: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 18:54:50: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 18:54:53: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 18:54:58: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr1/ENCFF558PHY.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 18:55:00: 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	47016

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

Start	2017-04-13 18:51:33
End	2017-04-13 19:03:56
Elapsed	00:12:23
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 215 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
24782 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:51:46: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 215 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:51:46: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:51:46: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:51:48:  1000000 
INFO  @ Thu, 13 Apr 2017 18:51:50:  2000000 
INFO  @ Thu, 13 Apr 2017 18:51:52:  3000000 
INFO  @ Thu, 13 Apr 2017 18:51:54:  4000000 
INFO  @ Thu, 13 Apr 2017 18:51:56:  5000000 
INFO  @ Thu, 13 Apr 2017 18:51:58:  6000000 
INFO  @ Thu, 13 Apr 2017 18:51:59:  7000000 
INFO  @ Thu, 13 Apr 2017 18:52:01:  8000000 
INFO  @ Thu, 13 Apr 2017 18:52:02:  9000000 
INFO  @ Thu, 13 Apr 2017 18:52:04:  10000000 
INFO  @ Thu, 13 Apr 2017 18:52:05:  11000000 
INFO  @ Thu, 13 Apr 2017 18:52:07:  12000000 
INFO  @ Thu, 13 Apr 2017 18:52:08:  13000000 
INFO  @ Thu, 13 Apr 2017 18:52:10:  14000000 
INFO  @ Thu, 13 Apr 2017 18:52:12:  15000000 
INFO  @ Thu, 13 Apr 2017 18:52:13:  16000000 
INFO  @ Thu, 13 Apr 2017 18:52:15:  17000000 
INFO  @ Thu, 13 Apr 2017 18:52:16:  18000000 
INFO  @ Thu, 13 Apr 2017 18:52:18:  19000000 
INFO  @ Thu, 13 Apr 2017 18:52:19:  20000000 
INFO  @ Thu, 13 Apr 2017 18:52:21:  21000000 
INFO  @ Thu, 13 Apr 2017 18:52:22:  22000000 
INFO  @ Thu, 13 Apr 2017 18:52:24:  23000000 
INFO  @ Thu, 13 Apr 2017 18:52:26:  24000000 
INFO  @ Thu, 13 Apr 2017 18:52:28:  25000000 
INFO  @ Thu, 13 Apr 2017 18:52:29:  26000000 
INFO  @ Thu, 13 Apr 2017 18:52:31:  27000000 
INFO  @ Thu, 13 Apr 2017 18:52:33: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:52:34:  1000000 
INFO  @ Thu, 13 Apr 2017 18:52:36:  2000000 
INFO  @ Thu, 13 Apr 2017 18:52:37:  3000000 
INFO  @ Thu, 13 Apr 2017 18:52:39:  4000000 
INFO  @ Thu, 13 Apr 2017 18:52:40:  5000000 
INFO  @ Thu, 13 Apr 2017 18:52:41:  6000000 
INFO  @ Thu, 13 Apr 2017 18:52:43:  7000000 
INFO  @ Thu, 13 Apr 2017 18:52:44:  8000000 
INFO  @ Thu, 13 Apr 2017 18:52:46:  9000000 
INFO  @ Thu, 13 Apr 2017 18:52:47:  10000000 
INFO  @ Thu, 13 Apr 2017 18:52:48:  11000000 
INFO  @ Thu, 13 Apr 2017 18:52:50:  12000000 
INFO  @ Thu, 13 Apr 2017 18:52:51:  13000000 
INFO  @ Thu, 13 Apr 2017 18:52:53:  14000000 
INFO  @ Thu, 13 Apr 2017 18:52:54:  15000000 
INFO  @ Thu, 13 Apr 2017 18:52:55:  16000000 
INFO  @ Thu, 13 Apr 2017 18:52:57:  17000000 
INFO  @ Thu, 13 Apr 2017 18:52:58:  18000000 
INFO  @ Thu, 13 Apr 2017 18:52:59:  19000000 
INFO  @ Thu, 13 Apr 2017 18:53:01:  20000000 
INFO  @ Thu, 13 Apr 2017 18:53:02:  21000000 
INFO  @ Thu, 13 Apr 2017 18:53:04:  22000000 
INFO  @ Thu, 13 Apr 2017 18:53:05:  23000000 
INFO  @ Thu, 13 Apr 2017 18:53:06:  24000000 
INFO  @ Thu, 13 Apr 2017 18:53:08:  25000000 
INFO  @ Thu, 13 Apr 2017 18:53:09:  26000000 
INFO  @ Thu, 13 Apr 2017 18:53:11:  27000000 
INFO  @ Thu, 13 Apr 2017 18:53:12:  28000000 
INFO  @ Thu, 13 Apr 2017 18:53:13:  29000000 
INFO  @ Thu, 13 Apr 2017 18:53:15:  30000000 
INFO  @ Thu, 13 Apr 2017 18:53:16:  31000000 
INFO  @ Thu, 13 Apr 2017 18:53:18:  32000000 
INFO  @ Thu, 13 Apr 2017 18:53:19:  33000000 
INFO  @ Thu, 13 Apr 2017 18:53:20:  34000000 
INFO  @ Thu, 13 Apr 2017 18:53:22:  35000000 
INFO  @ Thu, 13 Apr 2017 18:53:23:  36000000 
INFO  @ Thu, 13 Apr 2017 18:53:24:  37000000 
INFO  @ Thu, 13 Apr 2017 18:53:26:  38000000 
INFO  @ Thu, 13 Apr 2017 18:53:27:  39000000 
INFO  @ Thu, 13 Apr 2017 18:53:29:  40000000 
INFO  @ Thu, 13 Apr 2017 18:53:30:  41000000 
INFO  @ Thu, 13 Apr 2017 18:53:31:  42000000 
INFO  @ Thu, 13 Apr 2017 18:53:33:  43000000 
INFO  @ Thu, 13 Apr 2017 18:53:34:  44000000 
INFO  @ Thu, 13 Apr 2017 18:53:35:  45000000 
INFO  @ Thu, 13 Apr 2017 18:53:37:  46000000 
INFO  @ Thu, 13 Apr 2017 18:53:38:  47000000 
INFO  @ Thu, 13 Apr 2017 18:53:40:  48000000 
INFO  @ Thu, 13 Apr 2017 18:53:41:  49000000 
INFO  @ Thu, 13 Apr 2017 18:53:42:  50000000 
INFO  @ Thu, 13 Apr 2017 18:53:44:  51000000 
INFO  @ Thu, 13 Apr 2017 18:53:45:  52000000 
INFO  @ Thu, 13 Apr 2017 18:53:46:  53000000 
INFO  @ Thu, 13 Apr 2017 18:53:48:  54000000 
INFO  @ Thu, 13 Apr 2017 18:53:49:  55000000 
INFO  @ Thu, 13 Apr 2017 18:53:51:  56000000 
INFO  @ Thu, 13 Apr 2017 18:53:52:  57000000 
INFO  @ Thu, 13 Apr 2017 18:53:53:  58000000 
INFO  @ Thu, 13 Apr 2017 18:53:55:  59000000 
INFO  @ Thu, 13 Apr 2017 18:53:56:  60000000 
INFO  @ Thu, 13 Apr 2017 18:53:58:  61000000 
INFO  @ Thu, 13 Apr 2017 18:53:59:  62000000 
INFO  @ Thu, 13 Apr 2017 18:54:00:  63000000 
INFO  @ Thu, 13 Apr 2017 18:54:02:  64000000 
INFO  @ Thu, 13 Apr 2017 18:54:03:  65000000 
INFO  @ Thu, 13 Apr 2017 18:54:05:  66000000 
INFO  @ Thu, 13 Apr 2017 18:54:06:  67000000 
INFO  @ Thu, 13 Apr 2017 18:54:07:  68000000 
INFO  @ Thu, 13 Apr 2017 18:54:09:  69000000 
INFO  @ Thu, 13 Apr 2017 18:54:10:  70000000 
INFO  @ Thu, 13 Apr 2017 18:54:11:  71000000 
INFO  @ Thu, 13 Apr 2017 18:54:13:  72000000 
INFO  @ Thu, 13 Apr 2017 18:54:14:  73000000 
INFO  @ Thu, 13 Apr 2017 18:54:16:  74000000 
INFO  @ Thu, 13 Apr 2017 18:54:17:  75000000 
INFO  @ Thu, 13 Apr 2017 18:54:18:  76000000 
INFO  @ Thu, 13 Apr 2017 18:54:20:  77000000 
INFO  @ Thu, 13 Apr 2017 18:54:21:  78000000 
INFO  @ Thu, 13 Apr 2017 18:54:23:  79000000 
INFO  @ Thu, 13 Apr 2017 18:54:24:  80000000 
INFO  @ Thu, 13 Apr 2017 18:54:25:  81000000 
INFO  @ Thu, 13 Apr 2017 18:54:27:  82000000 
INFO  @ Thu, 13 Apr 2017 18:54:28:  83000000 
INFO  @ Thu, 13 Apr 2017 18:54:29:  84000000 
INFO  @ Thu, 13 Apr 2017 18:54:31:  85000000 
INFO  @ Thu, 13 Apr 2017 18:54:32:  86000000 
INFO  @ Thu, 13 Apr 2017 18:54:34:  87000000 
INFO  @ Thu, 13 Apr 2017 18:54:35:  88000000 
INFO  @ Thu, 13 Apr 2017 18:54:36:  89000000 
INFO  @ Thu, 13 Apr 2017 18:54:38:  90000000 
INFO  @ Thu, 13 Apr 2017 18:54:39:  91000000 
INFO  @ Thu, 13 Apr 2017 18:54:41:  92000000 
INFO  @ Thu, 13 Apr 2017 18:54:42:  93000000 
INFO  @ Thu, 13 Apr 2017 18:54:43:  94000000 
INFO  @ Thu, 13 Apr 2017 18:54:45:  95000000 
INFO  @ Thu, 13 Apr 2017 18:54:46:  96000000 
INFO  @ Thu, 13 Apr 2017 18:54:47:  97000000 
INFO  @ Thu, 13 Apr 2017 18:54:49:  98000000 
INFO  @ Thu, 13 Apr 2017 18:54:50:  99000000 
INFO  @ Thu, 13 Apr 2017 18:54:52: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:54:52: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:54:52: #1  total tags in treatment: 27344898 
INFO  @ Thu, 13 Apr 2017 18:54:52: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:54:52: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:54:52: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:54:52: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:54:52: #2 Use 215 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:54:52: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:54:52: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:54:52: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 18:59:48: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 19:03:43: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 19:03:45: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 19:03:47: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep1/pr2/ENCFF558PHY.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 19:03:48: Done!

Num	7
ID	task.callpeak_macs2.macs2_g_b_rep2.line_155.id_16
Name	macs2 g/b rep2
Thread	thread_Root
PID	47017

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

Start	2017-04-13 18:51:41
End	2017-04-13 19:14:01
Elapsed	00:22:20
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep2/ENCFF645WYX.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/rep2/ENCFF645WYX.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 210 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
19594 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:52:02: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep2/ENCFF645WYX.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 210 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep2/ENCFF645WYX.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:52:02: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:52:02: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:52:04:  1000000 
INFO  @ Thu, 13 Apr 2017 18:52:06:  2000000 
INFO  @ Thu, 13 Apr 2017 18:52:08:  3000000 
INFO  @ Thu, 13 Apr 2017 18:52:10:  4000000 
INFO  @ Thu, 13 Apr 2017 18:52:12:  5000000 
INFO  @ Thu, 13 Apr 2017 18:52:14:  6000000 
INFO  @ Thu, 13 Apr 2017 18:52:16:  7000000 
INFO  @ Thu, 13 Apr 2017 18:52:18:  8000000 
INFO  @ Thu, 13 Apr 2017 18:52:20:  9000000 
INFO  @ Thu, 13 Apr 2017 18:52:22:  10000000 
INFO  @ Thu, 13 Apr 2017 18:52:24:  11000000 
INFO  @ Thu, 13 Apr 2017 18:52:26:  12000000 
INFO  @ Thu, 13 Apr 2017 18:52:28:  13000000 
INFO  @ Thu, 13 Apr 2017 18:52:30:  14000000 
INFO  @ Thu, 13 Apr 2017 18:52:32:  15000000 
INFO  @ Thu, 13 Apr 2017 18:52:34:  16000000 
INFO  @ Thu, 13 Apr 2017 18:52:36:  17000000 
INFO  @ Thu, 13 Apr 2017 18:52:38:  18000000 
INFO  @ Thu, 13 Apr 2017 18:52:40:  19000000 
INFO  @ Thu, 13 Apr 2017 18:52:42:  20000000 
INFO  @ Thu, 13 Apr 2017 18:52:44:  21000000 
INFO  @ Thu, 13 Apr 2017 18:52:46:  22000000 
INFO  @ Thu, 13 Apr 2017 18:52:48:  23000000 
INFO  @ Thu, 13 Apr 2017 18:52:50:  24000000 
INFO  @ Thu, 13 Apr 2017 18:52:52:  25000000 
INFO  @ Thu, 13 Apr 2017 18:52:54:  26000000 
INFO  @ Thu, 13 Apr 2017 18:52:56:  27000000 
INFO  @ Thu, 13 Apr 2017 18:52:58:  28000000 
INFO  @ Thu, 13 Apr 2017 18:53:00:  29000000 
INFO  @ Thu, 13 Apr 2017 18:53:02:  30000000 
INFO  @ Thu, 13 Apr 2017 18:53:04:  31000000 
INFO  @ Thu, 13 Apr 2017 18:53:06:  32000000 
INFO  @ Thu, 13 Apr 2017 18:53:08:  33000000 
INFO  @ Thu, 13 Apr 2017 18:53:10:  34000000 
INFO  @ Thu, 13 Apr 2017 18:53:12:  35000000 
INFO  @ Thu, 13 Apr 2017 18:53:14:  36000000 
INFO  @ Thu, 13 Apr 2017 18:53:16:  37000000 
INFO  @ Thu, 13 Apr 2017 18:53:18:  38000000 
INFO  @ Thu, 13 Apr 2017 18:53:20:  39000000 
INFO  @ Thu, 13 Apr 2017 18:53:22:  40000000 
INFO  @ Thu, 13 Apr 2017 18:53:24:  41000000 
INFO  @ Thu, 13 Apr 2017 18:53:26:  42000000 
INFO  @ Thu, 13 Apr 2017 18:53:28:  43000000 
INFO  @ Thu, 13 Apr 2017 18:53:30:  44000000 
INFO  @ Thu, 13 Apr 2017 18:53:32:  45000000 
INFO  @ Thu, 13 Apr 2017 18:53:34:  46000000 
INFO  @ Thu, 13 Apr 2017 18:53:36:  47000000 
INFO  @ Thu, 13 Apr 2017 18:53:38:  48000000 
INFO  @ Thu, 13 Apr 2017 18:53:40:  49000000 
INFO  @ Thu, 13 Apr 2017 18:53:42:  50000000 
INFO  @ Thu, 13 Apr 2017 18:53:43:  51000000 
INFO  @ Thu, 13 Apr 2017 18:53:45:  52000000 
INFO  @ Thu, 13 Apr 2017 18:53:47:  53000000 
INFO  @ Thu, 13 Apr 2017 18:53:53: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:53:55:  1000000 
INFO  @ Thu, 13 Apr 2017 18:53:57:  2000000 
INFO  @ Thu, 13 Apr 2017 18:53:59:  3000000 
INFO  @ Thu, 13 Apr 2017 18:54:01:  4000000 
INFO  @ Thu, 13 Apr 2017 18:54:03:  5000000 
INFO  @ Thu, 13 Apr 2017 18:54:05:  6000000 
INFO  @ Thu, 13 Apr 2017 18:54:06:  7000000 
INFO  @ Thu, 13 Apr 2017 18:54:08:  8000000 
INFO  @ Thu, 13 Apr 2017 18:54:10:  9000000 
INFO  @ Thu, 13 Apr 2017 18:54:12:  10000000 
INFO  @ Thu, 13 Apr 2017 18:54:14:  11000000 
INFO  @ Thu, 13 Apr 2017 18:54:15:  12000000 
INFO  @ Thu, 13 Apr 2017 18:54:17:  13000000 
INFO  @ Thu, 13 Apr 2017 18:54:19:  14000000 
INFO  @ Thu, 13 Apr 2017 18:54:21:  15000000 
INFO  @ Thu, 13 Apr 2017 18:54:23:  16000000 
INFO  @ Thu, 13 Apr 2017 18:54:25:  17000000 
INFO  @ Thu, 13 Apr 2017 18:54:27:  18000000 
INFO  @ Thu, 13 Apr 2017 18:54:29:  19000000 
INFO  @ Thu, 13 Apr 2017 18:54:31:  20000000 
INFO  @ Thu, 13 Apr 2017 18:54:33:  21000000 
INFO  @ Thu, 13 Apr 2017 18:54:34:  22000000 
INFO  @ Thu, 13 Apr 2017 18:54:36:  23000000 
INFO  @ Thu, 13 Apr 2017 18:54:38:  24000000 
INFO  @ Thu, 13 Apr 2017 18:54:40:  25000000 
INFO  @ Thu, 13 Apr 2017 18:54:42:  26000000 
INFO  @ Thu, 13 Apr 2017 18:54:44:  27000000 
INFO  @ Thu, 13 Apr 2017 18:54:45:  28000000 
INFO  @ Thu, 13 Apr 2017 18:54:47:  29000000 
INFO  @ Thu, 13 Apr 2017 18:54:49:  30000000 
INFO  @ Thu, 13 Apr 2017 18:54:51:  31000000 
INFO  @ Thu, 13 Apr 2017 18:54:53:  32000000 
INFO  @ Thu, 13 Apr 2017 18:54:55:  33000000 
INFO  @ Thu, 13 Apr 2017 18:54:56:  34000000 
INFO  @ Thu, 13 Apr 2017 18:54:58:  35000000 
INFO  @ Thu, 13 Apr 2017 18:55:00:  36000000 
INFO  @ Thu, 13 Apr 2017 18:55:02:  37000000 
INFO  @ Thu, 13 Apr 2017 18:55:04:  38000000 
INFO  @ Thu, 13 Apr 2017 18:55:06:  39000000 
INFO  @ Thu, 13 Apr 2017 18:55:07:  40000000 
INFO  @ Thu, 13 Apr 2017 18:55:09:  41000000 
INFO  @ Thu, 13 Apr 2017 18:55:11:  42000000 
INFO  @ Thu, 13 Apr 2017 18:55:13:  43000000 
INFO  @ Thu, 13 Apr 2017 18:55:15:  44000000 
INFO  @ Thu, 13 Apr 2017 18:55:17:  45000000 
INFO  @ Thu, 13 Apr 2017 18:55:19:  46000000 
INFO  @ Thu, 13 Apr 2017 18:55:20:  47000000 
INFO  @ Thu, 13 Apr 2017 18:55:22:  48000000 
INFO  @ Thu, 13 Apr 2017 18:55:24:  49000000 
INFO  @ Thu, 13 Apr 2017 18:55:26:  50000000 
INFO  @ Thu, 13 Apr 2017 18:55:28:  51000000 
INFO  @ Thu, 13 Apr 2017 18:55:30:  52000000 
INFO  @ Thu, 13 Apr 2017 18:55:32:  53000000 
INFO  @ Thu, 13 Apr 2017 18:55:33:  54000000 
INFO  @ Thu, 13 Apr 2017 18:55:35:  55000000 
INFO  @ Thu, 13 Apr 2017 18:55:37:  56000000 
INFO  @ Thu, 13 Apr 2017 18:55:39:  57000000 
INFO  @ Thu, 13 Apr 2017 18:55:41:  58000000 
INFO  @ Thu, 13 Apr 2017 18:55:43:  59000000 
INFO  @ Thu, 13 Apr 2017 18:55:45:  60000000 
INFO  @ Thu, 13 Apr 2017 18:55:46:  61000000 
INFO  @ Thu, 13 Apr 2017 18:55:48:  62000000 
INFO  @ Thu, 13 Apr 2017 18:55:50:  63000000 
INFO  @ Thu, 13 Apr 2017 18:55:52:  64000000 
INFO  @ Thu, 13 Apr 2017 18:55:54:  65000000 
INFO  @ Thu, 13 Apr 2017 18:55:56:  66000000 
INFO  @ Thu, 13 Apr 2017 18:55:57:  67000000 
INFO  @ Thu, 13 Apr 2017 18:55:59:  68000000 
INFO  @ Thu, 13 Apr 2017 18:56:01:  69000000 
INFO  @ Thu, 13 Apr 2017 18:56:03:  70000000 
INFO  @ Thu, 13 Apr 2017 18:56:05:  71000000 
INFO  @ Thu, 13 Apr 2017 18:56:07:  72000000 
INFO  @ Thu, 13 Apr 2017 18:56:08:  73000000 
INFO  @ Thu, 13 Apr 2017 18:56:10:  74000000 
INFO  @ Thu, 13 Apr 2017 18:56:12:  75000000 
INFO  @ Thu, 13 Apr 2017 18:56:14:  76000000 
INFO  @ Thu, 13 Apr 2017 18:56:16:  77000000 
INFO  @ Thu, 13 Apr 2017 18:56:18:  78000000 
INFO  @ Thu, 13 Apr 2017 18:56:19:  79000000 
INFO  @ Thu, 13 Apr 2017 18:56:21:  80000000 
INFO  @ Thu, 13 Apr 2017 18:56:23:  81000000 
INFO  @ Thu, 13 Apr 2017 18:56:25:  82000000 
INFO  @ Thu, 13 Apr 2017 18:56:27:  83000000 
INFO  @ Thu, 13 Apr 2017 18:56:29:  84000000 
INFO  @ Thu, 13 Apr 2017 18:56:30:  85000000 
INFO  @ Thu, 13 Apr 2017 18:56:32:  86000000 
INFO  @ Thu, 13 Apr 2017 18:56:34:  87000000 
INFO  @ Thu, 13 Apr 2017 18:56:36:  88000000 
INFO  @ Thu, 13 Apr 2017 18:56:38:  89000000 
INFO  @ Thu, 13 Apr 2017 18:56:40:  90000000 
INFO  @ Thu, 13 Apr 2017 18:56:41:  91000000 
INFO  @ Thu, 13 Apr 2017 18:56:43:  92000000 
INFO  @ Thu, 13 Apr 2017 18:56:45:  93000000 
INFO  @ Thu, 13 Apr 2017 18:56:47:  94000000 
INFO  @ Thu, 13 Apr 2017 18:56:49:  95000000 
INFO  @ Thu, 13 Apr 2017 18:56:51:  96000000 
INFO  @ Thu, 13 Apr 2017 18:56:52:  97000000 
INFO  @ Thu, 13 Apr 2017 18:56:54:  98000000 
INFO  @ Thu, 13 Apr 2017 18:56:56:  99000000 
INFO  @ Thu, 13 Apr 2017 18:56:58: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:56:58: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:56:58: #1  total tags in treatment: 53733056 
INFO  @ Thu, 13 Apr 2017 18:56:58: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:56:58: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:56:58: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:56:58: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:56:58: #2 Use 210 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:56:58: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:56:58: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:56:58: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 19:06:38: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 19:13:51: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 19:13:53: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 19:13:54: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 19:13:56: 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	47018

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

Start	2017-04-13 18:52:19
End	2017-04-13 19:04:34
Elapsed	00:12:15
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 210 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
26604 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:52:30: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 210 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:52:30: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:52:30: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:52:32:  1000000 
INFO  @ Thu, 13 Apr 2017 18:52:34:  2000000 
INFO  @ Thu, 13 Apr 2017 18:52:35:  3000000 
INFO  @ Thu, 13 Apr 2017 18:52:37:  4000000 
INFO  @ Thu, 13 Apr 2017 18:52:38:  5000000 
INFO  @ Thu, 13 Apr 2017 18:52:40:  6000000 
INFO  @ Thu, 13 Apr 2017 18:52:41:  7000000 
INFO  @ Thu, 13 Apr 2017 18:52:43:  8000000 
INFO  @ Thu, 13 Apr 2017 18:52:44:  9000000 
INFO  @ Thu, 13 Apr 2017 18:52:46:  10000000 
INFO  @ Thu, 13 Apr 2017 18:52:47:  11000000 
INFO  @ Thu, 13 Apr 2017 18:52:49:  12000000 
INFO  @ Thu, 13 Apr 2017 18:52:50:  13000000 
INFO  @ Thu, 13 Apr 2017 18:52:52:  14000000 
INFO  @ Thu, 13 Apr 2017 18:52:53:  15000000 
INFO  @ Thu, 13 Apr 2017 18:52:55:  16000000 
INFO  @ Thu, 13 Apr 2017 18:52:56:  17000000 
INFO  @ Thu, 13 Apr 2017 18:52:58:  18000000 
INFO  @ Thu, 13 Apr 2017 18:52:59:  19000000 
INFO  @ Thu, 13 Apr 2017 18:53:01:  20000000 
INFO  @ Thu, 13 Apr 2017 18:53:02:  21000000 
INFO  @ Thu, 13 Apr 2017 18:53:04:  22000000 
INFO  @ Thu, 13 Apr 2017 18:53:05:  23000000 
INFO  @ Thu, 13 Apr 2017 18:53:07:  24000000 
INFO  @ Thu, 13 Apr 2017 18:53:08:  25000000 
INFO  @ Thu, 13 Apr 2017 18:53:10:  26000000 
INFO  @ Thu, 13 Apr 2017 18:53:13: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:53:14:  1000000 
INFO  @ Thu, 13 Apr 2017 18:53:16:  2000000 
INFO  @ Thu, 13 Apr 2017 18:53:17:  3000000 
INFO  @ Thu, 13 Apr 2017 18:53:19:  4000000 
INFO  @ Thu, 13 Apr 2017 18:53:20:  5000000 
INFO  @ Thu, 13 Apr 2017 18:53:21:  6000000 
INFO  @ Thu, 13 Apr 2017 18:53:23:  7000000 
INFO  @ Thu, 13 Apr 2017 18:53:24:  8000000 
INFO  @ Thu, 13 Apr 2017 18:53:26:  9000000 
INFO  @ Thu, 13 Apr 2017 18:53:27:  10000000 
INFO  @ Thu, 13 Apr 2017 18:53:29:  11000000 
INFO  @ Thu, 13 Apr 2017 18:53:30:  12000000 
INFO  @ Thu, 13 Apr 2017 18:53:31:  13000000 
INFO  @ Thu, 13 Apr 2017 18:53:33:  14000000 
INFO  @ Thu, 13 Apr 2017 18:53:34:  15000000 
INFO  @ Thu, 13 Apr 2017 18:53:36:  16000000 
INFO  @ Thu, 13 Apr 2017 18:53:37:  17000000 
INFO  @ Thu, 13 Apr 2017 18:53:38:  18000000 
INFO  @ Thu, 13 Apr 2017 18:53:40:  19000000 
INFO  @ Thu, 13 Apr 2017 18:53:41:  20000000 
INFO  @ Thu, 13 Apr 2017 18:53:42:  21000000 
INFO  @ Thu, 13 Apr 2017 18:53:44:  22000000 
INFO  @ Thu, 13 Apr 2017 18:53:45:  23000000 
INFO  @ Thu, 13 Apr 2017 18:53:47:  24000000 
INFO  @ Thu, 13 Apr 2017 18:53:48:  25000000 
INFO  @ Thu, 13 Apr 2017 18:53:49:  26000000 
INFO  @ Thu, 13 Apr 2017 18:53:51:  27000000 
INFO  @ Thu, 13 Apr 2017 18:53:52:  28000000 
INFO  @ Thu, 13 Apr 2017 18:53:54:  29000000 
INFO  @ Thu, 13 Apr 2017 18:53:55:  30000000 
INFO  @ Thu, 13 Apr 2017 18:53:56:  31000000 
INFO  @ Thu, 13 Apr 2017 18:53:58:  32000000 
INFO  @ Thu, 13 Apr 2017 18:53:59:  33000000 
INFO  @ Thu, 13 Apr 2017 18:54:01:  34000000 
INFO  @ Thu, 13 Apr 2017 18:54:02:  35000000 
INFO  @ Thu, 13 Apr 2017 18:54:03:  36000000 
INFO  @ Thu, 13 Apr 2017 18:54:05:  37000000 
INFO  @ Thu, 13 Apr 2017 18:54:06:  38000000 
INFO  @ Thu, 13 Apr 2017 18:54:08:  39000000 
INFO  @ Thu, 13 Apr 2017 18:54:09:  40000000 
INFO  @ Thu, 13 Apr 2017 18:54:11:  41000000 
INFO  @ Thu, 13 Apr 2017 18:54:12:  42000000 
INFO  @ Thu, 13 Apr 2017 18:54:14:  43000000 
INFO  @ Thu, 13 Apr 2017 18:54:15:  44000000 
INFO  @ Thu, 13 Apr 2017 18:54:17:  45000000 
INFO  @ Thu, 13 Apr 2017 18:54:18:  46000000 
INFO  @ Thu, 13 Apr 2017 18:54:20:  47000000 
INFO  @ Thu, 13 Apr 2017 18:54:21:  48000000 
INFO  @ Thu, 13 Apr 2017 18:54:23:  49000000 
INFO  @ Thu, 13 Apr 2017 18:54:24:  50000000 
INFO  @ Thu, 13 Apr 2017 18:54:25:  51000000 
INFO  @ Thu, 13 Apr 2017 18:54:27:  52000000 
INFO  @ Thu, 13 Apr 2017 18:54:28:  53000000 
INFO  @ Thu, 13 Apr 2017 18:54:30:  54000000 
INFO  @ Thu, 13 Apr 2017 18:54:31:  55000000 
INFO  @ Thu, 13 Apr 2017 18:54:32:  56000000 
INFO  @ Thu, 13 Apr 2017 18:54:34:  57000000 
INFO  @ Thu, 13 Apr 2017 18:54:35:  58000000 
INFO  @ Thu, 13 Apr 2017 18:54:37:  59000000 
INFO  @ Thu, 13 Apr 2017 18:54:38:  60000000 
INFO  @ Thu, 13 Apr 2017 18:54:39:  61000000 
INFO  @ Thu, 13 Apr 2017 18:54:41:  62000000 
INFO  @ Thu, 13 Apr 2017 18:54:42:  63000000 
INFO  @ Thu, 13 Apr 2017 18:54:44:  64000000 
INFO  @ Thu, 13 Apr 2017 18:54:45:  65000000 
INFO  @ Thu, 13 Apr 2017 18:54:46:  66000000 
INFO  @ Thu, 13 Apr 2017 18:54:48:  67000000 
INFO  @ Thu, 13 Apr 2017 18:54:49:  68000000 
INFO  @ Thu, 13 Apr 2017 18:54:51:  69000000 
INFO  @ Thu, 13 Apr 2017 18:54:52:  70000000 
INFO  @ Thu, 13 Apr 2017 18:54:53:  71000000 
INFO  @ Thu, 13 Apr 2017 18:54:55:  72000000 
INFO  @ Thu, 13 Apr 2017 18:54:57:  73000000 
INFO  @ Thu, 13 Apr 2017 18:54:58:  74000000 
INFO  @ Thu, 13 Apr 2017 18:54:59:  75000000 
INFO  @ Thu, 13 Apr 2017 18:55:01:  76000000 
INFO  @ Thu, 13 Apr 2017 18:55:02:  77000000 
INFO  @ Thu, 13 Apr 2017 18:55:04:  78000000 
INFO  @ Thu, 13 Apr 2017 18:55:05:  79000000 
INFO  @ Thu, 13 Apr 2017 18:55:07:  80000000 
INFO  @ Thu, 13 Apr 2017 18:55:08:  81000000 
INFO  @ Thu, 13 Apr 2017 18:55:10:  82000000 
INFO  @ Thu, 13 Apr 2017 18:55:11:  83000000 
INFO  @ Thu, 13 Apr 2017 18:55:13:  84000000 
INFO  @ Thu, 13 Apr 2017 18:55:14:  85000000 
INFO  @ Thu, 13 Apr 2017 18:55:16:  86000000 
INFO  @ Thu, 13 Apr 2017 18:55:17:  87000000 
INFO  @ Thu, 13 Apr 2017 18:55:19:  88000000 
INFO  @ Thu, 13 Apr 2017 18:55:21:  89000000 
INFO  @ Thu, 13 Apr 2017 18:55:22:  90000000 
INFO  @ Thu, 13 Apr 2017 18:55:23:  91000000 
INFO  @ Thu, 13 Apr 2017 18:55:25:  92000000 
INFO  @ Thu, 13 Apr 2017 18:55:26:  93000000 
INFO  @ Thu, 13 Apr 2017 18:55:28:  94000000 
INFO  @ Thu, 13 Apr 2017 18:55:29:  95000000 
INFO  @ Thu, 13 Apr 2017 18:55:31:  96000000 
INFO  @ Thu, 13 Apr 2017 18:55:32:  97000000 
INFO  @ Thu, 13 Apr 2017 18:55:34:  98000000 
INFO  @ Thu, 13 Apr 2017 18:55:35:  99000000 
INFO  @ Thu, 13 Apr 2017 18:55:37: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:55:37: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:55:37: #1  total tags in treatment: 26866528 
INFO  @ Thu, 13 Apr 2017 18:55:37: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:55:37: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:55:37: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:55:37: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:55:37: #2 Use 210 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:55:37: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:55:37: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:55:37: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 19:00:28: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 19:04:22: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 19:04:24: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 19:04:26: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr1/ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 19:04:28: 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	47024

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

Start	2017-04-13 18:55:12
End	2017-04-13 19:07:33
Elapsed	00:12:20
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 210 --keep-dup all

# SYS command. line 166

 sort -k 8gr,8gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz

# SYS command. line 167

 sort -k 14gr,14gr "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak | awk 'BEGIN{OFS="\t"}{$4="Peak_"NR ; print $0}' | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz

# SYS command. line 170

 rm -f "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.xls \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.broadPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign"_peaks.gappedPeak \
		  "/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
34102 (process ID) old priority 0, new priority 19

 
--------------------Stderr--------------------
INFO  @ Thu, 13 Apr 2017 18:55:32: 
# Command line: callpeak -t /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign.gz -c /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz -f BED -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign -g hs -p 0.01 --broad --nomodel --shift 0 --extsize 210 --keep-dup all
# ARGUMENTS LIST:
# name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign
# format = BED
# ChIP-seq file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign.gz']
# control file = ['/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.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  @ Thu, 13 Apr 2017 18:55:32: #1 read tag files... 
INFO  @ Thu, 13 Apr 2017 18:55:32: #1 read treatment tags... 
INFO  @ Thu, 13 Apr 2017 18:55:34:  1000000 
INFO  @ Thu, 13 Apr 2017 18:55:35:  2000000 
INFO  @ Thu, 13 Apr 2017 18:55:37:  3000000 
INFO  @ Thu, 13 Apr 2017 18:55:38:  4000000 
INFO  @ Thu, 13 Apr 2017 18:55:40:  5000000 
INFO  @ Thu, 13 Apr 2017 18:55:41:  6000000 
INFO  @ Thu, 13 Apr 2017 18:55:43:  7000000 
INFO  @ Thu, 13 Apr 2017 18:55:44:  8000000 
INFO  @ Thu, 13 Apr 2017 18:55:46:  9000000 
INFO  @ Thu, 13 Apr 2017 18:55:47:  10000000 
INFO  @ Thu, 13 Apr 2017 18:55:49:  11000000 
INFO  @ Thu, 13 Apr 2017 18:55:50:  12000000 
INFO  @ Thu, 13 Apr 2017 18:55:52:  13000000 
INFO  @ Thu, 13 Apr 2017 18:55:53:  14000000 
INFO  @ Thu, 13 Apr 2017 18:55:55:  15000000 
INFO  @ Thu, 13 Apr 2017 18:55:56:  16000000 
INFO  @ Thu, 13 Apr 2017 18:55:58:  17000000 
INFO  @ Thu, 13 Apr 2017 18:56:00:  18000000 
INFO  @ Thu, 13 Apr 2017 18:56:01:  19000000 
INFO  @ Thu, 13 Apr 2017 18:56:03:  20000000 
INFO  @ Thu, 13 Apr 2017 18:56:04:  21000000 
INFO  @ Thu, 13 Apr 2017 18:56:06:  22000000 
INFO  @ Thu, 13 Apr 2017 18:56:07:  23000000 
INFO  @ Thu, 13 Apr 2017 18:56:09:  24000000 
INFO  @ Thu, 13 Apr 2017 18:56:10:  25000000 
INFO  @ Thu, 13 Apr 2017 18:56:12:  26000000 
INFO  @ Thu, 13 Apr 2017 18:56:15: #1.2 read input tags... 
INFO  @ Thu, 13 Apr 2017 18:56:16:  1000000 
INFO  @ Thu, 13 Apr 2017 18:56:18:  2000000 
INFO  @ Thu, 13 Apr 2017 18:56:19:  3000000 
INFO  @ Thu, 13 Apr 2017 18:56:20:  4000000 
INFO  @ Thu, 13 Apr 2017 18:56:22:  5000000 
INFO  @ Thu, 13 Apr 2017 18:56:23:  6000000 
INFO  @ Thu, 13 Apr 2017 18:56:25:  7000000 
INFO  @ Thu, 13 Apr 2017 18:56:26:  8000000 
INFO  @ Thu, 13 Apr 2017 18:56:27:  9000000 
INFO  @ Thu, 13 Apr 2017 18:56:29:  10000000 
INFO  @ Thu, 13 Apr 2017 18:56:30:  11000000 
INFO  @ Thu, 13 Apr 2017 18:56:31:  12000000 
INFO  @ Thu, 13 Apr 2017 18:56:33:  13000000 
INFO  @ Thu, 13 Apr 2017 18:56:34:  14000000 
INFO  @ Thu, 13 Apr 2017 18:56:36:  15000000 
INFO  @ Thu, 13 Apr 2017 18:56:37:  16000000 
INFO  @ Thu, 13 Apr 2017 18:56:38:  17000000 
INFO  @ Thu, 13 Apr 2017 18:56:40:  18000000 
INFO  @ Thu, 13 Apr 2017 18:56:41:  19000000 
INFO  @ Thu, 13 Apr 2017 18:56:43:  20000000 
INFO  @ Thu, 13 Apr 2017 18:56:44:  21000000 
INFO  @ Thu, 13 Apr 2017 18:56:45:  22000000 
INFO  @ Thu, 13 Apr 2017 18:56:47:  23000000 
INFO  @ Thu, 13 Apr 2017 18:56:48:  24000000 
INFO  @ Thu, 13 Apr 2017 18:56:50:  25000000 
INFO  @ Thu, 13 Apr 2017 18:56:51:  26000000 
INFO  @ Thu, 13 Apr 2017 18:56:52:  27000000 
INFO  @ Thu, 13 Apr 2017 18:56:54:  28000000 
INFO  @ Thu, 13 Apr 2017 18:56:55:  29000000 
INFO  @ Thu, 13 Apr 2017 18:56:56:  30000000 
INFO  @ Thu, 13 Apr 2017 18:56:58:  31000000 
INFO  @ Thu, 13 Apr 2017 18:56:59:  32000000 
INFO  @ Thu, 13 Apr 2017 18:57:01:  33000000 
INFO  @ Thu, 13 Apr 2017 18:57:02:  34000000 
INFO  @ Thu, 13 Apr 2017 18:57:03:  35000000 
INFO  @ Thu, 13 Apr 2017 18:57:05:  36000000 
INFO  @ Thu, 13 Apr 2017 18:57:06:  37000000 
INFO  @ Thu, 13 Apr 2017 18:57:07:  38000000 
INFO  @ Thu, 13 Apr 2017 18:57:09:  39000000 
INFO  @ Thu, 13 Apr 2017 18:57:10:  40000000 
INFO  @ Thu, 13 Apr 2017 18:57:12:  41000000 
INFO  @ Thu, 13 Apr 2017 18:57:13:  42000000 
INFO  @ Thu, 13 Apr 2017 18:57:14:  43000000 
INFO  @ Thu, 13 Apr 2017 18:57:16:  44000000 
INFO  @ Thu, 13 Apr 2017 18:57:17:  45000000 
INFO  @ Thu, 13 Apr 2017 18:57:19:  46000000 
INFO  @ Thu, 13 Apr 2017 18:57:20:  47000000 
INFO  @ Thu, 13 Apr 2017 18:57:21:  48000000 
INFO  @ Thu, 13 Apr 2017 18:57:23:  49000000 
INFO  @ Thu, 13 Apr 2017 18:57:24:  50000000 
INFO  @ Thu, 13 Apr 2017 18:57:25:  51000000 
INFO  @ Thu, 13 Apr 2017 18:57:27:  52000000 
INFO  @ Thu, 13 Apr 2017 18:57:28:  53000000 
INFO  @ Thu, 13 Apr 2017 18:57:30:  54000000 
INFO  @ Thu, 13 Apr 2017 18:57:31:  55000000 
INFO  @ Thu, 13 Apr 2017 18:57:32:  56000000 
INFO  @ Thu, 13 Apr 2017 18:57:34:  57000000 
INFO  @ Thu, 13 Apr 2017 18:57:35:  58000000 
INFO  @ Thu, 13 Apr 2017 18:57:37:  59000000 
INFO  @ Thu, 13 Apr 2017 18:57:38:  60000000 
INFO  @ Thu, 13 Apr 2017 18:57:39:  61000000 
INFO  @ Thu, 13 Apr 2017 18:57:41:  62000000 
INFO  @ Thu, 13 Apr 2017 18:57:42:  63000000 
INFO  @ Thu, 13 Apr 2017 18:57:43:  64000000 
INFO  @ Thu, 13 Apr 2017 18:57:45:  65000000 
INFO  @ Thu, 13 Apr 2017 18:57:46:  66000000 
INFO  @ Thu, 13 Apr 2017 18:57:48:  67000000 
INFO  @ Thu, 13 Apr 2017 18:57:49:  68000000 
INFO  @ Thu, 13 Apr 2017 18:57:50:  69000000 
INFO  @ Thu, 13 Apr 2017 18:57:52:  70000000 
INFO  @ Thu, 13 Apr 2017 18:57:53:  71000000 
INFO  @ Thu, 13 Apr 2017 18:57:55:  72000000 
INFO  @ Thu, 13 Apr 2017 18:57:56:  73000000 
INFO  @ Thu, 13 Apr 2017 18:57:57:  74000000 
INFO  @ Thu, 13 Apr 2017 18:57:59:  75000000 
INFO  @ Thu, 13 Apr 2017 18:58:00:  76000000 
INFO  @ Thu, 13 Apr 2017 18:58:01:  77000000 
INFO  @ Thu, 13 Apr 2017 18:58:03:  78000000 
INFO  @ Thu, 13 Apr 2017 18:58:04:  79000000 
INFO  @ Thu, 13 Apr 2017 18:58:06:  80000000 
INFO  @ Thu, 13 Apr 2017 18:58:07:  81000000 
INFO  @ Thu, 13 Apr 2017 18:58:08:  82000000 
INFO  @ Thu, 13 Apr 2017 18:58:10:  83000000 
INFO  @ Thu, 13 Apr 2017 18:58:11:  84000000 
INFO  @ Thu, 13 Apr 2017 18:58:13:  85000000 
INFO  @ Thu, 13 Apr 2017 18:58:14:  86000000 
INFO  @ Thu, 13 Apr 2017 18:58:15:  87000000 
INFO  @ Thu, 13 Apr 2017 18:58:17:  88000000 
INFO  @ Thu, 13 Apr 2017 18:58:18:  89000000 
INFO  @ Thu, 13 Apr 2017 18:58:19:  90000000 
INFO  @ Thu, 13 Apr 2017 18:58:21:  91000000 
INFO  @ Thu, 13 Apr 2017 18:58:22:  92000000 
INFO  @ Thu, 13 Apr 2017 18:58:24:  93000000 
INFO  @ Thu, 13 Apr 2017 18:58:25:  94000000 
INFO  @ Thu, 13 Apr 2017 18:58:26:  95000000 
INFO  @ Thu, 13 Apr 2017 18:58:28:  96000000 
INFO  @ Thu, 13 Apr 2017 18:58:29:  97000000 
INFO  @ Thu, 13 Apr 2017 18:58:30:  98000000 
INFO  @ Thu, 13 Apr 2017 18:58:32:  99000000 
INFO  @ Thu, 13 Apr 2017 18:58:33: #1 tag size is determined as 101 bps 
INFO  @ Thu, 13 Apr 2017 18:58:33: #1 tag size = 101 
INFO  @ Thu, 13 Apr 2017 18:58:33: #1  total tags in treatment: 26866528 
INFO  @ Thu, 13 Apr 2017 18:58:33: #1  total tags in control: 99493262 
INFO  @ Thu, 13 Apr 2017 18:58:33: #1 finished! 
INFO  @ Thu, 13 Apr 2017 18:58:33: #2 Build Peak Model... 
INFO  @ Thu, 13 Apr 2017 18:58:33: #2 Skipped... 
INFO  @ Thu, 13 Apr 2017 18:58:33: #2 Use 210 as fragment length 
INFO  @ Thu, 13 Apr 2017 18:58:33: #3 Call peaks... 
INFO  @ Thu, 13 Apr 2017 18:58:33: #3 Call broad peaks with given level1 -log10pvalue cutoff and level2: 2.00000, 1.00000... 
INFO  @ Thu, 13 Apr 2017 18:58:33: #3 Pre-compute pvalue-qvalue table... 
INFO  @ Thu, 13 Apr 2017 19:03:31: #3 Call peaks for each chromosome... 
INFO  @ Thu, 13 Apr 2017 19:07:20: #4 Write output xls file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.xls 
INFO  @ Thu, 13 Apr 2017 19:07:23: #4 Write broad peak in broadPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.broadPeak 
INFO  @ Thu, 13 Apr 2017 19:07:24: #4 Write broad peak in bed12/gappedPeak format file... /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pseudo_reps/rep2/pr2/ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign_peaks.gappedPeak 
INFO  @ Thu, 13 Apr 2017 19:07:25: Done!

Num	10
ID	task.callpeak_naive_overlap.naive_overlap.line_143.id_19
Name	naive_overlap
Thread	thread_Root
PID	47031

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

Start	2017-04-13 19:14:04
End	2017-04-13 19:15:15
Elapsed	00:01:10
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInReps.gappedPeak.gz

# SYS command. line 151

 intersectBed  -wo -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.gappedPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInPsRep1AndPsRep2.gappedPeak.gz

# SYS command. line 154

 zcat /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInReps.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInPsRep1AndPsRep2.gappedPeak.gz | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.gappedPeak.gz

# SYS command. line 156

 bedtools intersect -v -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.gappedPeak.gz

# SYS command. line 158

 rm -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInReps.gappedPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
25324 (process ID) old priority 0, new priority 19
Waiting for 52 seconds.

Num	11
ID	task.callpeak_naive_overlap.naive_overlap.line_143.id_20
Name	naive_overlap
Thread	thread_Root
PID	47032

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

Start	2017-04-13 19:14:06
End	2017-04-13 19:15:30
Elapsed	00:01:23
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/rep1/ENCFF558PHY.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/rep2/ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInReps.broadPeak.gz

# SYS command. line 151

 intersectBed  -wo -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_rep/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.broadPeak.gz) -b <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr1/ENCFF558PHY.pr1_ENCFF645WYX.pr1.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/pooled_pseudo_reps/ppr2/ENCFF558PHY.pr2_ENCFF645WYX.pr2.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInPsRep1AndPsRep2.broadPeak.gz

# SYS command. line 154

 zcat /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInReps.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInPsRep1AndPsRep2.broadPeak.gz | sort | uniq | gzip -nc > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.broadPeak.gz

# SYS command. line 156

 bedtools intersect -v -a <(zcat -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.broadPeak.gz

# SYS command. line 158

 rm -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.PooledInReps.broadPeak.gz /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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--------------------
26068 (process ID) old priority 0, new priority 19
Waiting for 54 seconds.

Num	12
ID	task.report.peak2hammock.line_361.id_23
Name	peak2hammock
Thread	thread_Root
PID	29607

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

Start	2017-04-13 19:15:34
End	2017-04-13 19:15:45
Elapsed	00:00:10
Timeout	00:00:-1
Wall Timeout	100 days

Input files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.gappedPeak.gz
Output files	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.gappedPeak.gz | sed '/^\(chr\)/!d' | sort -k1,1V -k2,2n > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.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/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.gappedPeak.tmp /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.gappedPeak.hammock

# SYS command. line 367

 rm -f /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/peak/macs2/overlap/ENCFF558PHY_ENCFF645WYX.tagAlign_x_ss_50M_2000_GRCh38.nodup.tagAlign.naive_overlap.filt.gappedPeak.tmp

   
--------------------Stdout--------------------
29611 (process ID) old priority 0, new priority 19

Num	13
ID	task.graphviz.report.line_97.id_24
Name	report
Thread	thread_Root
PID	30132

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

Start	2017-04-13 19:15:46
End	2017-04-13 19:15:54
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/ZIC2_MACS2/out/report/ZIC2_MACS2_workflow.dot > /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/report/ZIC2_MACS2_workflow.svg 2> /dev/null || echo "svg: /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/report/ZIC2_MACS2_workflow.svg" # to suppress dot font error (exit code=1)

   
--------------------Stdout--------------------
30142 (process ID) old priority 0, new priority 19

Type	Name	Value
string	_	/usr/bin/bds
bool	allowEmpty	false
string[]	args	[-title, ZIC2_MACS2, -nth, 5, -species, hg38_ENCODE, -url_base, http://mitra.stanford.edu/kundaje/leepc12/imk_chipseq/ZIC2_MACS2/out, -filt_bam1, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep1/ENCFF558PHY.bam, -filt_bam2, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZIC2_MACS2/out/align/rep2/ENCFF645WYX.bam, -ctl_tag, /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/InputData/ss_50M_2000_GRCh38.nodup.tagAlign.gz, -pe, -histone, $]
bool	canFail	false
string	CPATH	/users/imk1/anaconda2/pkgs/gsl-1.16-1/include
int	cpus	-1
int	cpusLocal	56
int	day	86400
string	DEEPLIFT_DIR	/srv/scratch/imk1/TFBindingPredictionProject/src/deeplift/deeplift
string	DERBY_HOME	/usr/lib/jvm/java-8-oracle/db
string	DISPLAY	localhost:12.0
real	E	2.718281828459045
string	ENHANCER_SCRIPTS_DIR	/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/src/enhancer_prediction_code/
string	EVENT_NOEPOLL	1
int	G	1073741824
string	HOME	/users/imk1/
int	hour	3600
string	J2REDIR	/usr/lib/jvm/java-8-oracle/jre
string	J2SDKDIR	/usr/lib/jvm/java-8-oracle
string	JAVA_HOME	/usr/lib/jvm/java-8-oracle
int	K	1024
string	KERAS_DIR	/users/imk1/.local/lib/python2.7/site-packages/keras/
string	KRB5CCNAME	FILE:/tmp/krb5cc_1048_CCx82k
string	LANG	en_US.UTF-8
string	LIBRARY_PATH	/users/imk1/anaconda2/pkgs/gsl-1.16-1/lib
string	LOADEDMODULES
string	LOGNAME	imk1
int	M	1048576
string	MAIL	/var/mail/imk1
int	mem	-1
int	minute	60
string	MODULE_VERSION	3.2.10
string	MODULE_VERSION_STACK	3.2.10
string	MODULEPATH	/usr/local/Modules/versions\t\t\t\t:/usr/local/Modules/$MODULE_VERSION/modulefiles\t:/modules/\t\t\t\t:/software/modulefiles
string	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
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/ZIC2_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/ZIC2_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 57067 171.65.76.63 22
string	SSH_TTY	/dev/pts/4
string	STY	45686.ZIC2_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,43619,2
string	TMUX_PANE	%2
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