Job ID = 16434297 SRX = SRX10925642 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:06 21701825 reads; of these: 21701825 (100.00%) were unpaired; of these: 6246174 (28.78%) aligned 0 times 11117334 (51.23%) aligned exactly 1 time 4338317 (19.99%) aligned >1 times 71.22% overall alignment rate Time searching: 00:09:07 Overall time: 00:09:07 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4311305 / 15455651 = 0.2789 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 10:05:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.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 @ Tue, 02 Aug 2022 10:05:57: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:05:57: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:06: 1000000 INFO @ Tue, 02 Aug 2022 10:06:15: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 10:06:25: 3000000 INFO @ Tue, 02 Aug 2022 10:06:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.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 @ Tue, 02 Aug 2022 10:06:27: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:27: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:35: 4000000 INFO @ Tue, 02 Aug 2022 10:06:37: 1000000 INFO @ Tue, 02 Aug 2022 10:06:45: 2000000 INFO @ Tue, 02 Aug 2022 10:06:46: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 10:06:56: 3000000 INFO @ Tue, 02 Aug 2022 10:06:57: 6000000 INFO @ Tue, 02 Aug 2022 10:06:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.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 @ Tue, 02 Aug 2022 10:06:57: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:57: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:07:08: 4000000 INFO @ Tue, 02 Aug 2022 10:07:08: 7000000 INFO @ Tue, 02 Aug 2022 10:07:09: 1000000 INFO @ Tue, 02 Aug 2022 10:07:19: 8000000 INFO @ Tue, 02 Aug 2022 10:07:19: 5000000 INFO @ Tue, 02 Aug 2022 10:07:21: 2000000 INFO @ Tue, 02 Aug 2022 10:07:30: 9000000 INFO @ Tue, 02 Aug 2022 10:07:32: 6000000 INFO @ Tue, 02 Aug 2022 10:07:33: 3000000 INFO @ Tue, 02 Aug 2022 10:07:42: 10000000 INFO @ Tue, 02 Aug 2022 10:07:43: 7000000 INFO @ Tue, 02 Aug 2022 10:07:47: 4000000 INFO @ Tue, 02 Aug 2022 10:07:53: 11000000 INFO @ Tue, 02 Aug 2022 10:07:53: 8000000 INFO @ Tue, 02 Aug 2022 10:07:54: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:07:54: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:07:54: #1 total tags in treatment: 11144346 INFO @ Tue, 02 Aug 2022 10:07:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:07:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 10:07:54: #1 tags after filtering in treatment: 11144346 INFO @ Tue, 02 Aug 2022 10:07:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:07:54: #1 finished! INFO @ Tue, 02 Aug 2022 10:07:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:07:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:07:55: #2 number of paired peaks: 3701 INFO @ Tue, 02 Aug 2022 10:07:55: start model_add_line... INFO @ Tue, 02 Aug 2022 10:07:56: start X-correlation... INFO @ Tue, 02 Aug 2022 10:07:56: end of X-cor INFO @ Tue, 02 Aug 2022 10:07:56: #2 finished! INFO @ Tue, 02 Aug 2022 10:07:56: #2 predicted fragment length is 201 bps INFO @ Tue, 02 Aug 2022 10:07:56: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 02 Aug 2022 10:07:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.05_model.r INFO @ Tue, 02 Aug 2022 10:07:56: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:07:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:08:00: 5000000 INFO @ Tue, 02 Aug 2022 10:08:02: 9000000 INFO @ Tue, 02 Aug 2022 10:08:12: 10000000 INFO @ Tue, 02 Aug 2022 10:08:15: 6000000 INFO @ Tue, 02 Aug 2022 10:08:22: 11000000 INFO @ Tue, 02 Aug 2022 10:08:23: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:08:23: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:08:23: #1 total tags in treatment: 11144346 INFO @ Tue, 02 Aug 2022 10:08:23: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:08:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 10:08:23: #1 tags after filtering in treatment: 11144346 INFO @ Tue, 02 Aug 2022 10:08:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:08:23: #1 finished! INFO @ Tue, 02 Aug 2022 10:08:23: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:08:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:08:25: #2 number of paired peaks: 3701 INFO @ Tue, 02 Aug 2022 10:08:25: start model_add_line... INFO @ Tue, 02 Aug 2022 10:08:25: start X-correlation... INFO @ Tue, 02 Aug 2022 10:08:25: end of X-cor INFO @ Tue, 02 Aug 2022 10:08:25: #2 finished! INFO @ Tue, 02 Aug 2022 10:08:25: #2 predicted fragment length is 201 bps INFO @ Tue, 02 Aug 2022 10:08:25: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 02 Aug 2022 10:08:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.10_model.r INFO @ Tue, 02 Aug 2022 10:08:25: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:08:25: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:08:29: 7000000 INFO @ Tue, 02 Aug 2022 10:08:32: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:08:42: 8000000 INFO @ Tue, 02 Aug 2022 10:08:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.05_peaks.xls INFO @ Tue, 02 Aug 2022 10:08:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:08:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.05_summits.bed INFO @ Tue, 02 Aug 2022 10:08:47: Done! pass1 - making usageList (6 chroms): 17 millis pass2 - checking and writing primary data (21547 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:08:54: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 10:09:00: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:09:05: 10000000 INFO @ Tue, 02 Aug 2022 10:09:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.10_peaks.xls INFO @ Tue, 02 Aug 2022 10:09:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:09:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.10_summits.bed INFO @ Tue, 02 Aug 2022 10:09:14: Done! pass1 - making usageList (6 chroms): 15 millis pass2 - checking and writing primary data (14738 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:09:15: 11000000 INFO @ Tue, 02 Aug 2022 10:09:16: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:09:16: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:09:16: #1 total tags in treatment: 11144346 INFO @ Tue, 02 Aug 2022 10:09:16: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:09:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 10:09:17: #1 tags after filtering in treatment: 11144346 INFO @ Tue, 02 Aug 2022 10:09:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:09:17: #1 finished! INFO @ Tue, 02 Aug 2022 10:09:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:09:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:09:18: #2 number of paired peaks: 3701 INFO @ Tue, 02 Aug 2022 10:09:18: start model_add_line... INFO @ Tue, 02 Aug 2022 10:09:18: start X-correlation... INFO @ Tue, 02 Aug 2022 10:09:18: end of X-cor INFO @ Tue, 02 Aug 2022 10:09:18: #2 finished! INFO @ Tue, 02 Aug 2022 10:09:18: #2 predicted fragment length is 201 bps INFO @ Tue, 02 Aug 2022 10:09:18: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 02 Aug 2022 10:09:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.20_model.r INFO @ Tue, 02 Aug 2022 10:09:18: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:09:18: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 10:09:52: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:10:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.20_peaks.xls INFO @ Tue, 02 Aug 2022 10:10:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:10:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925642/SRX10925642.20_summits.bed INFO @ Tue, 02 Aug 2022 10:10:04: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7140 records, 4 fields): 41 millis CompletedMACS2peakCalling