Job ID = 16434313 SRX = SRX10925643 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: 00:09:04 22745630 reads; of these: 22745630 (100.00%) were unpaired; of these: 7105499 (31.24%) aligned 0 times 11304580 (49.70%) aligned exactly 1 time 4335551 (19.06%) aligned >1 times 68.76% overall alignment rate Time searching: 00:09:04 Overall time: 00:09:04 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] 4274723 / 15640131 = 0.2733 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 10:06:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.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 10:06:14: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:14: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:24: 1000000 INFO @ Tue, 02 Aug 2022 10:06:35: 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 10:06:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.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 10:06:44: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:44: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:46: 3000000 INFO @ Tue, 02 Aug 2022 10:06:56: 1000000 INFO @ Tue, 02 Aug 2022 10:06:58: 4000000 INFO @ Tue, 02 Aug 2022 10:07:10: 2000000 INFO @ Tue, 02 Aug 2022 10:07:11: 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 10:07:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.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 10:07:16: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:07:16: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:07:23: 6000000 INFO @ Tue, 02 Aug 2022 10:07:23: 3000000 INFO @ Tue, 02 Aug 2022 10:07:29: 1000000 INFO @ Tue, 02 Aug 2022 10:07:34: 7000000 INFO @ Tue, 02 Aug 2022 10:07:37: 4000000 INFO @ Tue, 02 Aug 2022 10:07:42: 2000000 INFO @ Tue, 02 Aug 2022 10:07:48: 8000000 INFO @ Tue, 02 Aug 2022 10:07:51: 5000000 INFO @ Tue, 02 Aug 2022 10:07:56: 3000000 INFO @ Tue, 02 Aug 2022 10:08:00: 9000000 INFO @ Tue, 02 Aug 2022 10:08:06: 6000000 INFO @ Tue, 02 Aug 2022 10:08:11: 10000000 INFO @ Tue, 02 Aug 2022 10:08:12: 4000000 INFO @ Tue, 02 Aug 2022 10:08:22: 11000000 INFO @ Tue, 02 Aug 2022 10:08:23: 7000000 INFO @ Tue, 02 Aug 2022 10:08:26: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:08:26: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:08:26: #1 total tags in treatment: 11365408 INFO @ Tue, 02 Aug 2022 10:08:26: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:08:26: #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 10:08:26: #1 tags after filtering in treatment: 11365408 INFO @ Tue, 02 Aug 2022 10:08:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:08:26: #1 finished! INFO @ Tue, 02 Aug 2022 10:08:26: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:08:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:08:26: 5000000 INFO @ Tue, 02 Aug 2022 10:08:27: #2 number of paired peaks: 3364 INFO @ Tue, 02 Aug 2022 10:08:27: start model_add_line... INFO @ Tue, 02 Aug 2022 10:08:27: start X-correlation... INFO @ Tue, 02 Aug 2022 10:08:27: end of X-cor INFO @ Tue, 02 Aug 2022 10:08:27: #2 finished! INFO @ Tue, 02 Aug 2022 10:08:27: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 10:08:27: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 10:08:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.05_model.r INFO @ Tue, 02 Aug 2022 10:08:27: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:08:27: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:08:37: 8000000 INFO @ Tue, 02 Aug 2022 10:08:38: 6000000 INFO @ Tue, 02 Aug 2022 10:08:50: 9000000 INFO @ Tue, 02 Aug 2022 10:08:51: 7000000 INFO @ Tue, 02 Aug 2022 10:09:02: 10000000 INFO @ Tue, 02 Aug 2022 10:09:02: 8000000 INFO @ Tue, 02 Aug 2022 10:09:05: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 10:09:13: 11000000 INFO @ Tue, 02 Aug 2022 10:09:15: 9000000 INFO @ Tue, 02 Aug 2022 10:09:17: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:09:17: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:09:17: #1 total tags in treatment: 11365408 INFO @ Tue, 02 Aug 2022 10:09:17: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:09:17: #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: 11365408 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 10:09:19: #2 number of paired peaks: 3364 INFO @ Tue, 02 Aug 2022 10:09:19: start model_add_line... INFO @ Tue, 02 Aug 2022 10:09:19: start X-correlation... INFO @ Tue, 02 Aug 2022 10:09:19: end of X-cor INFO @ Tue, 02 Aug 2022 10:09:19: #2 finished! INFO @ Tue, 02 Aug 2022 10:09:19: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 10:09:19: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 10:09:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.10_model.r INFO @ Tue, 02 Aug 2022 10:09:19: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:09:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:09:20: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.05_peaks.xls INFO @ Tue, 02 Aug 2022 10:09:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:09:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.05_summits.bed INFO @ Tue, 02 Aug 2022 10:09:21: Done! pass1 - making usageList (6 chroms): 17 millis pass2 - checking and writing primary data (22799 records, 4 fields): 536 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:09:25: 10000000 INFO @ Tue, 02 Aug 2022 10:09:35: 11000000 INFO @ Tue, 02 Aug 2022 10:09:38: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:09:38: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:09:38: #1 total tags in treatment: 11365408 INFO @ Tue, 02 Aug 2022 10:09:38: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:09:38: #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 10:09:39: #1 tags after filtering in treatment: 11365408 INFO @ Tue, 02 Aug 2022 10:09:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:09:39: #1 finished! INFO @ Tue, 02 Aug 2022 10:09:39: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:09:39: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 10:09:40: #2 number of paired peaks: 3364 INFO @ Tue, 02 Aug 2022 10:09:40: start model_add_line... INFO @ Tue, 02 Aug 2022 10:09:40: start X-correlation... INFO @ Tue, 02 Aug 2022 10:09:40: end of X-cor INFO @ Tue, 02 Aug 2022 10:09:40: #2 finished! INFO @ Tue, 02 Aug 2022 10:09:40: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 10:09:40: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 10:09:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.20_model.r INFO @ Tue, 02 Aug 2022 10:09:40: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:09:40: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:09:53: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:10:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.10_peaks.xls INFO @ Tue, 02 Aug 2022 10:10:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:10:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.10_summits.bed INFO @ Tue, 02 Aug 2022 10:10:06: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (15065 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:10:12: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:10:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.20_peaks.xls INFO @ Tue, 02 Aug 2022 10:10:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:10:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925643/SRX10925643.20_summits.bed INFO @ Tue, 02 Aug 2022 10:10:24: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6850 records, 4 fields): 38 millis CompletedMACS2peakCalling