Job ID = 14160357 SRX = SRX8832074 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:43 12283396 reads; of these: 12283396 (100.00%) were unpaired; of these: 9384120 (76.40%) aligned 0 times 1774123 (14.44%) aligned exactly 1 time 1125153 (9.16%) aligned >1 times 23.60% overall alignment rate Time searching: 00:01:43 Overall time: 00:01:43 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_rmdupse_core] 745698 / 2899276 = 0.2572 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 01:46:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 01:46:50: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:46:50: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:46:57: 1000000 INFO @ Thu, 09 Dec 2021 01:47:04: 2000000 INFO @ Thu, 09 Dec 2021 01:47:05: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:47:05: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:47:05: #1 total tags in treatment: 2153578 INFO @ Thu, 09 Dec 2021 01:47:05: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:47:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:47:05: #1 tags after filtering in treatment: 2153578 INFO @ Thu, 09 Dec 2021 01:47:05: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:47:05: #1 finished! INFO @ Thu, 09 Dec 2021 01:47:05: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:47:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:47:05: #2 number of paired peaks: 3373 INFO @ Thu, 09 Dec 2021 01:47:05: start model_add_line... INFO @ Thu, 09 Dec 2021 01:47:05: start X-correlation... INFO @ Thu, 09 Dec 2021 01:47:05: end of X-cor INFO @ Thu, 09 Dec 2021 01:47:05: #2 finished! INFO @ Thu, 09 Dec 2021 01:47:05: #2 predicted fragment length is 102 bps INFO @ Thu, 09 Dec 2021 01:47:05: #2 alternative fragment length(s) may be 102 bps INFO @ Thu, 09 Dec 2021 01:47:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.05_model.r INFO @ Thu, 09 Dec 2021 01:47:05: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:47:05: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:47:11: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:47:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:47:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:47:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.05_summits.bed INFO @ Thu, 09 Dec 2021 01:47:14: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2523 records, 4 fields): 4 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 01:47:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 01:47:21: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:47:21: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:47:28: 1000000 INFO @ Thu, 09 Dec 2021 01:47:34: 2000000 INFO @ Thu, 09 Dec 2021 01:47:36: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:47:36: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:47:36: #1 total tags in treatment: 2153578 INFO @ Thu, 09 Dec 2021 01:47:36: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:47:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:47:36: #1 tags after filtering in treatment: 2153578 INFO @ Thu, 09 Dec 2021 01:47:36: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:47:36: #1 finished! INFO @ Thu, 09 Dec 2021 01:47:36: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:47:36: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:47:36: #2 number of paired peaks: 3373 INFO @ Thu, 09 Dec 2021 01:47:36: start model_add_line... INFO @ Thu, 09 Dec 2021 01:47:36: start X-correlation... INFO @ Thu, 09 Dec 2021 01:47:36: end of X-cor INFO @ Thu, 09 Dec 2021 01:47:36: #2 finished! INFO @ Thu, 09 Dec 2021 01:47:36: #2 predicted fragment length is 102 bps INFO @ Thu, 09 Dec 2021 01:47:36: #2 alternative fragment length(s) may be 102 bps INFO @ Thu, 09 Dec 2021 01:47:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.10_model.r INFO @ Thu, 09 Dec 2021 01:47:36: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:47:36: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:47:42: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:47:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:47:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:47:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.10_summits.bed INFO @ Thu, 09 Dec 2021 01:47:45: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (933 records, 4 fields): 5 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 01:47:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 01:47:50: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:47:50: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:47:56: 1000000 INFO @ Thu, 09 Dec 2021 01:48:02: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:48:03: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:48:03: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:48:03: #1 total tags in treatment: 2153578 INFO @ Thu, 09 Dec 2021 01:48:03: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:48:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:48:03: #1 tags after filtering in treatment: 2153578 INFO @ Thu, 09 Dec 2021 01:48:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:48:03: #1 finished! INFO @ Thu, 09 Dec 2021 01:48:03: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:48:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:48:03: #2 number of paired peaks: 3373 INFO @ Thu, 09 Dec 2021 01:48:03: start model_add_line... INFO @ Thu, 09 Dec 2021 01:48:03: start X-correlation... INFO @ Thu, 09 Dec 2021 01:48:03: end of X-cor INFO @ Thu, 09 Dec 2021 01:48:03: #2 finished! INFO @ Thu, 09 Dec 2021 01:48:03: #2 predicted fragment length is 102 bps INFO @ Thu, 09 Dec 2021 01:48:03: #2 alternative fragment length(s) may be 102 bps INFO @ Thu, 09 Dec 2021 01:48:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.20_model.r INFO @ Thu, 09 Dec 2021 01:48:03: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:48:03: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:48:09: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:48:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:48:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:48:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832074/SRX8832074.20_summits.bed INFO @ Thu, 09 Dec 2021 01:48:12: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (304 records, 4 fields): 1 millis CompletedMACS2peakCalling