Job ID = 16433524 SRX = SRX10925654 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22079937 spots for SRR14580044/SRR14580044.sra Written 22079937 spots for SRR14580044/SRR14580044.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434568 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:48 22079937 reads; of these: 22079937 (100.00%) were unpaired; of these: 8803186 (39.87%) aligned 0 times 9743245 (44.13%) aligned exactly 1 time 3533506 (16.00%) aligned >1 times 60.13% overall alignment rate Time searching: 00:05:49 Overall time: 00:05:49 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] 3330360 / 13276751 = 0.2508 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 09:52:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.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 09:52:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:52:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:52:18: 1000000 INFO @ Tue, 02 Aug 2022 09:52:24: 2000000 INFO @ Tue, 02 Aug 2022 09:52:30: 3000000 INFO @ Tue, 02 Aug 2022 09:52:36: 4000000 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 09:52:41: 5000000 INFO @ Tue, 02 Aug 2022 09:52:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.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 09:52:41: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:52:41: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:52:47: 1000000 INFO @ Tue, 02 Aug 2022 09:52:47: 6000000 INFO @ Tue, 02 Aug 2022 09:52:52: 2000000 INFO @ Tue, 02 Aug 2022 09:52:53: 7000000 INFO @ Tue, 02 Aug 2022 09:52:58: 3000000 INFO @ Tue, 02 Aug 2022 09:52:59: 8000000 INFO @ Tue, 02 Aug 2022 09:53:04: 4000000 INFO @ Tue, 02 Aug 2022 09:53:05: 9000000 INFO @ Tue, 02 Aug 2022 09:53:09: 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 09:53:10: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:53:10: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:53:10: #1 total tags in treatment: 9946391 INFO @ Tue, 02 Aug 2022 09:53:10: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:53:10: #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 09:53:11: #1 tags after filtering in treatment: 9946391 INFO @ Tue, 02 Aug 2022 09:53:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:53:11: #1 finished! INFO @ Tue, 02 Aug 2022 09:53:11: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:53:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:53:11: #2 number of paired peaks: 3221 INFO @ Tue, 02 Aug 2022 09:53:11: start model_add_line... INFO @ Tue, 02 Aug 2022 09:53:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.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 09:53:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:53:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:53:12: start X-correlation... INFO @ Tue, 02 Aug 2022 09:53:12: end of X-cor INFO @ Tue, 02 Aug 2022 09:53:12: #2 finished! INFO @ Tue, 02 Aug 2022 09:53:12: #2 predicted fragment length is 186 bps INFO @ Tue, 02 Aug 2022 09:53:12: #2 alternative fragment length(s) may be 4,186 bps INFO @ Tue, 02 Aug 2022 09:53:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.05_model.r INFO @ Tue, 02 Aug 2022 09:53:12: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:53:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:53:15: 6000000 INFO @ Tue, 02 Aug 2022 09:53:17: 1000000 INFO @ Tue, 02 Aug 2022 09:53:20: 7000000 INFO @ Tue, 02 Aug 2022 09:53:22: 2000000 INFO @ Tue, 02 Aug 2022 09:53:26: 8000000 INFO @ Tue, 02 Aug 2022 09:53:28: 3000000 INFO @ Tue, 02 Aug 2022 09:53:32: 9000000 INFO @ Tue, 02 Aug 2022 09:53:33: 4000000 INFO @ Tue, 02 Aug 2022 09:53:37: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:53:37: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:53:37: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:53:37: #1 total tags in treatment: 9946391 INFO @ Tue, 02 Aug 2022 09:53:37: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:53:37: #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 09:53:37: #1 tags after filtering in treatment: 9946391 INFO @ Tue, 02 Aug 2022 09:53:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:53:37: #1 finished! INFO @ Tue, 02 Aug 2022 09:53:37: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:53:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:53:38: #2 number of paired peaks: 3221 INFO @ Tue, 02 Aug 2022 09:53:38: start model_add_line... INFO @ Tue, 02 Aug 2022 09:53:38: 5000000 INFO @ Tue, 02 Aug 2022 09:53:38: start X-correlation... INFO @ Tue, 02 Aug 2022 09:53:38: end of X-cor INFO @ Tue, 02 Aug 2022 09:53:38: #2 finished! INFO @ Tue, 02 Aug 2022 09:53:38: #2 predicted fragment length is 186 bps INFO @ Tue, 02 Aug 2022 09:53:38: #2 alternative fragment length(s) may be 4,186 bps INFO @ Tue, 02 Aug 2022 09:53:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.10_model.r INFO @ Tue, 02 Aug 2022 09:53:38: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:53:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:53:43: 6000000 INFO @ Tue, 02 Aug 2022 09:53:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:53:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:53:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.05_summits.bed INFO @ Tue, 02 Aug 2022 09:53:49: 7000000 INFO @ Tue, 02 Aug 2022 09:53:49: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (21529 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:53:54: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:53:59: 9000000 INFO @ Tue, 02 Aug 2022 09:54:03: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:54:03: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:54:03: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:54:03: #1 total tags in treatment: 9946391 INFO @ Tue, 02 Aug 2022 09:54:03: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:54:03: #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 09:54:04: #1 tags after filtering in treatment: 9946391 INFO @ Tue, 02 Aug 2022 09:54:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:54:04: #1 finished! INFO @ Tue, 02 Aug 2022 09:54:04: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:54:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:54:05: #2 number of paired peaks: 3221 INFO @ Tue, 02 Aug 2022 09:54:05: start model_add_line... INFO @ Tue, 02 Aug 2022 09:54:05: start X-correlation... INFO @ Tue, 02 Aug 2022 09:54:05: end of X-cor INFO @ Tue, 02 Aug 2022 09:54:05: #2 finished! INFO @ Tue, 02 Aug 2022 09:54:05: #2 predicted fragment length is 186 bps INFO @ Tue, 02 Aug 2022 09:54:05: #2 alternative fragment length(s) may be 4,186 bps INFO @ Tue, 02 Aug 2022 09:54:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.20_model.r INFO @ Tue, 02 Aug 2022 09:54:05: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:54:05: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:54:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:54:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:54:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.10_summits.bed INFO @ Tue, 02 Aug 2022 09:54:14: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (13091 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:54:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:54:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:54:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:54:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925654/SRX10925654.20_summits.bed INFO @ Tue, 02 Aug 2022 09:54:42: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5168 records, 4 fields): 47 millis CompletedMACS2peakCalling