Job ID = 14158373 SRX = SRX7665453 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 21141764 spots for SRR11004637/SRR11004637.sra Written 21141764 spots for SRR11004637/SRR11004637.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158925 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:27 21141764 reads; of these: 21141764 (100.00%) were unpaired; of these: 900510 (4.26%) aligned 0 times 18018305 (85.23%) aligned exactly 1 time 2222949 (10.51%) aligned >1 times 95.74% overall alignment rate Time searching: 00:04:27 Overall time: 00:04:27 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 12 files... [bam_rmdupse_core] 5094978 / 20241254 = 0.2517 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 @ Wed, 08 Dec 2021 16:38:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.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 @ Wed, 08 Dec 2021 16:38:01: #1 read tag files... INFO @ Wed, 08 Dec 2021 16:38:01: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 16:38:07: 1000000 INFO @ Wed, 08 Dec 2021 16:38:13: 2000000 INFO @ Wed, 08 Dec 2021 16:38:20: 3000000 INFO @ Wed, 08 Dec 2021 16:38:26: 4000000 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 @ Wed, 08 Dec 2021 16:38:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.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 @ Wed, 08 Dec 2021 16:38:31: #1 read tag files... INFO @ Wed, 08 Dec 2021 16:38:31: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 16:38:32: 5000000 INFO @ Wed, 08 Dec 2021 16:38:37: 1000000 INFO @ Wed, 08 Dec 2021 16:38:39: 6000000 INFO @ Wed, 08 Dec 2021 16:38:43: 2000000 INFO @ Wed, 08 Dec 2021 16:38:46: 7000000 INFO @ Wed, 08 Dec 2021 16:38:50: 3000000 INFO @ Wed, 08 Dec 2021 16:38:52: 8000000 INFO @ Wed, 08 Dec 2021 16:38:56: 4000000 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 @ Wed, 08 Dec 2021 16:38:59: 9000000 INFO @ Wed, 08 Dec 2021 16:39:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.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 @ Wed, 08 Dec 2021 16:39:01: #1 read tag files... INFO @ Wed, 08 Dec 2021 16:39:01: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 16:39:02: 5000000 INFO @ Wed, 08 Dec 2021 16:39:06: 10000000 INFO @ Wed, 08 Dec 2021 16:39:08: 1000000 INFO @ Wed, 08 Dec 2021 16:39:08: 6000000 INFO @ Wed, 08 Dec 2021 16:39:13: 11000000 INFO @ Wed, 08 Dec 2021 16:39:15: 2000000 INFO @ Wed, 08 Dec 2021 16:39:15: 7000000 INFO @ Wed, 08 Dec 2021 16:39:19: 12000000 INFO @ Wed, 08 Dec 2021 16:39:21: 8000000 INFO @ Wed, 08 Dec 2021 16:39:22: 3000000 INFO @ Wed, 08 Dec 2021 16:39:26: 13000000 INFO @ Wed, 08 Dec 2021 16:39:28: 9000000 INFO @ Wed, 08 Dec 2021 16:39:28: 4000000 INFO @ Wed, 08 Dec 2021 16:39:33: 14000000 INFO @ Wed, 08 Dec 2021 16:39:34: 10000000 INFO @ Wed, 08 Dec 2021 16:39:35: 5000000 INFO @ Wed, 08 Dec 2021 16:39:40: 15000000 INFO @ Wed, 08 Dec 2021 16:39:40: 11000000 INFO @ Wed, 08 Dec 2021 16:39:40: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 16:39:40: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 16:39:40: #1 total tags in treatment: 15146276 INFO @ Wed, 08 Dec 2021 16:39:40: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 16:39:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 16:39:41: #1 tags after filtering in treatment: 15146276 INFO @ Wed, 08 Dec 2021 16:39:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 16:39:41: #1 finished! INFO @ Wed, 08 Dec 2021 16:39:41: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 16:39:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 16:39:42: #2 number of paired peaks: 1650 INFO @ Wed, 08 Dec 2021 16:39:42: start model_add_line... INFO @ Wed, 08 Dec 2021 16:39:42: start X-correlation... INFO @ Wed, 08 Dec 2021 16:39:42: end of X-cor INFO @ Wed, 08 Dec 2021 16:39:42: #2 finished! INFO @ Wed, 08 Dec 2021 16:39:42: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 16:39:42: #2 alternative fragment length(s) may be 138 bps INFO @ Wed, 08 Dec 2021 16:39:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.05_model.r INFO @ Wed, 08 Dec 2021 16:39:42: #3 Call peaks... INFO @ Wed, 08 Dec 2021 16:39:42: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 16:39:42: 6000000 INFO @ Wed, 08 Dec 2021 16:39:47: 12000000 INFO @ Wed, 08 Dec 2021 16:39:49: 7000000 INFO @ Wed, 08 Dec 2021 16:39:53: 13000000 INFO @ Wed, 08 Dec 2021 16:39:56: 8000000 INFO @ Wed, 08 Dec 2021 16:39:59: 14000000 INFO @ Wed, 08 Dec 2021 16:40:02: 9000000 INFO @ Wed, 08 Dec 2021 16:40:06: 15000000 INFO @ Wed, 08 Dec 2021 16:40:07: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 16:40:07: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 16:40:07: #1 total tags in treatment: 15146276 INFO @ Wed, 08 Dec 2021 16:40:07: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 16:40:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 16:40:07: #1 tags after filtering in treatment: 15146276 INFO @ Wed, 08 Dec 2021 16:40:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 16:40:07: #1 finished! INFO @ Wed, 08 Dec 2021 16:40:07: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 16:40:07: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 16:40:08: #2 number of paired peaks: 1650 INFO @ Wed, 08 Dec 2021 16:40:08: start model_add_line... INFO @ Wed, 08 Dec 2021 16:40:08: start X-correlation... INFO @ Wed, 08 Dec 2021 16:40:08: end of X-cor INFO @ Wed, 08 Dec 2021 16:40:08: #2 finished! INFO @ Wed, 08 Dec 2021 16:40:08: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 16:40:08: #2 alternative fragment length(s) may be 138 bps INFO @ Wed, 08 Dec 2021 16:40:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.10_model.r INFO @ Wed, 08 Dec 2021 16:40:08: #3 Call peaks... INFO @ Wed, 08 Dec 2021 16:40:08: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 16:40:09: 10000000 INFO @ Wed, 08 Dec 2021 16:40:13: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 16:40:16: 11000000 INFO @ Wed, 08 Dec 2021 16:40:22: 12000000 INFO @ Wed, 08 Dec 2021 16:40:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.05_peaks.xls INFO @ Wed, 08 Dec 2021 16:40:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 16:40:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.05_summits.bed INFO @ Wed, 08 Dec 2021 16:40:28: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6874 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 16:40:29: 13000000 INFO @ Wed, 08 Dec 2021 16:40:35: 14000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 16:40:40: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 16:40:41: 15000000 INFO @ Wed, 08 Dec 2021 16:40:42: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 16:40:42: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 16:40:42: #1 total tags in treatment: 15146276 INFO @ Wed, 08 Dec 2021 16:40:42: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 16:40:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 16:40:42: #1 tags after filtering in treatment: 15146276 INFO @ Wed, 08 Dec 2021 16:40:42: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 16:40:42: #1 finished! INFO @ Wed, 08 Dec 2021 16:40:42: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 16:40:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 16:40:44: #2 number of paired peaks: 1650 INFO @ Wed, 08 Dec 2021 16:40:44: start model_add_line... INFO @ Wed, 08 Dec 2021 16:40:44: start X-correlation... INFO @ Wed, 08 Dec 2021 16:40:44: end of X-cor INFO @ Wed, 08 Dec 2021 16:40:44: #2 finished! INFO @ Wed, 08 Dec 2021 16:40:44: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 16:40:44: #2 alternative fragment length(s) may be 138 bps INFO @ Wed, 08 Dec 2021 16:40:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.20_model.r INFO @ Wed, 08 Dec 2021 16:40:44: #3 Call peaks... INFO @ Wed, 08 Dec 2021 16:40:44: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 16:40:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.10_peaks.xls INFO @ Wed, 08 Dec 2021 16:40:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 16:40:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.10_summits.bed INFO @ Wed, 08 Dec 2021 16:40:57: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4793 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 16:41:14: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 16:41:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.20_peaks.xls INFO @ Wed, 08 Dec 2021 16:41:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 16:41:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7665453/SRX7665453.20_summits.bed INFO @ Wed, 08 Dec 2021 16:41:29: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (3093 records, 4 fields): 5 millis CompletedMACS2peakCalling