Job ID = 16434328 SRX = SRX10925644 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: 00:09:11 22996189 reads; of these: 22996189 (100.00%) were unpaired; of these: 7196223 (31.29%) aligned 0 times 11258675 (48.96%) aligned exactly 1 time 4541291 (19.75%) aligned >1 times 68.71% overall alignment rate Time searching: 00:09:11 Overall time: 00:09:11 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] 4558074 / 15799966 = 0.2885 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 10:06:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.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 10:06:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:56: 1000000 INFO @ Tue, 02 Aug 2022 10:07:07: 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 10:07:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.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 10:07:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:07:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:07:17: 3000000 INFO @ Tue, 02 Aug 2022 10:07:26: 1000000 INFO @ Tue, 02 Aug 2022 10:07:28: 4000000 INFO @ Tue, 02 Aug 2022 10:07:35: 2000000 INFO @ Tue, 02 Aug 2022 10:07:39: 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 10:07:45: 3000000 INFO @ Tue, 02 Aug 2022 10:07:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.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 10:07:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:07:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:07:51: 6000000 INFO @ Tue, 02 Aug 2022 10:07:56: 4000000 INFO @ Tue, 02 Aug 2022 10:07:58: 1000000 INFO @ Tue, 02 Aug 2022 10:08:02: 7000000 INFO @ Tue, 02 Aug 2022 10:08:09: 2000000 INFO @ Tue, 02 Aug 2022 10:08:10: 5000000 INFO @ Tue, 02 Aug 2022 10:08:16: 8000000 INFO @ Tue, 02 Aug 2022 10:08:20: 3000000 INFO @ Tue, 02 Aug 2022 10:08:21: 6000000 INFO @ Tue, 02 Aug 2022 10:08:28: 9000000 INFO @ Tue, 02 Aug 2022 10:08:30: 4000000 INFO @ Tue, 02 Aug 2022 10:08:30: 7000000 INFO @ Tue, 02 Aug 2022 10:08:38: 10000000 INFO @ Tue, 02 Aug 2022 10:08:39: 5000000 INFO @ Tue, 02 Aug 2022 10:08:40: 8000000 INFO @ Tue, 02 Aug 2022 10:08:49: 11000000 INFO @ Tue, 02 Aug 2022 10:08:50: 6000000 INFO @ Tue, 02 Aug 2022 10:08:51: 9000000 INFO @ Tue, 02 Aug 2022 10:08:51: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:08:51: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:08:51: #1 total tags in treatment: 11241892 INFO @ Tue, 02 Aug 2022 10:08:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:08:51: #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 10:08:52: #1 tags after filtering in treatment: 11241892 INFO @ Tue, 02 Aug 2022 10:08:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:08:52: #1 finished! INFO @ Tue, 02 Aug 2022 10:08:52: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:08:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:08:53: #2 number of paired peaks: 4056 INFO @ Tue, 02 Aug 2022 10:08:53: start model_add_line... INFO @ Tue, 02 Aug 2022 10:08:53: start X-correlation... INFO @ Tue, 02 Aug 2022 10:08:53: end of X-cor INFO @ Tue, 02 Aug 2022 10:08:53: #2 finished! INFO @ Tue, 02 Aug 2022 10:08:53: #2 predicted fragment length is 200 bps INFO @ Tue, 02 Aug 2022 10:08:53: #2 alternative fragment length(s) may be 200 bps INFO @ Tue, 02 Aug 2022 10:08:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.05_model.r INFO @ Tue, 02 Aug 2022 10:08:53: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:08:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:09:00: 7000000 INFO @ Tue, 02 Aug 2022 10:09:01: 10000000 INFO @ Tue, 02 Aug 2022 10:09:11: 11000000 INFO @ Tue, 02 Aug 2022 10:09:11: 8000000 INFO @ Tue, 02 Aug 2022 10:09:13: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:09:13: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:09:13: #1 total tags in treatment: 11241892 INFO @ Tue, 02 Aug 2022 10:09:13: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:09:13: #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 10:09:13: #1 tags after filtering in treatment: 11241892 INFO @ Tue, 02 Aug 2022 10:09:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:09:13: #1 finished! INFO @ Tue, 02 Aug 2022 10:09:13: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:09:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:09:15: #2 number of paired peaks: 4056 INFO @ Tue, 02 Aug 2022 10:09:15: start model_add_line... INFO @ Tue, 02 Aug 2022 10:09:15: start X-correlation... INFO @ Tue, 02 Aug 2022 10:09:15: end of X-cor INFO @ Tue, 02 Aug 2022 10:09:15: #2 finished! INFO @ Tue, 02 Aug 2022 10:09:15: #2 predicted fragment length is 200 bps INFO @ Tue, 02 Aug 2022 10:09:15: #2 alternative fragment length(s) may be 200 bps INFO @ Tue, 02 Aug 2022 10:09:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.10_model.r INFO @ Tue, 02 Aug 2022 10:09:15: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:09:15: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:09:20: 9000000 INFO @ Tue, 02 Aug 2022 10:09:30: 10000000 INFO @ Tue, 02 Aug 2022 10:09:31: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:09:40: 11000000 INFO @ Tue, 02 Aug 2022 10:09:42: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:09:42: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:09:42: #1 total tags in treatment: 11241892 INFO @ Tue, 02 Aug 2022 10:09:42: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:09:42: #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 10:09:42: #1 tags after filtering in treatment: 11241892 INFO @ Tue, 02 Aug 2022 10:09:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:09:42: #1 finished! INFO @ Tue, 02 Aug 2022 10:09:42: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:09:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:09:43: #2 number of paired peaks: 4056 INFO @ Tue, 02 Aug 2022 10:09:43: start model_add_line... INFO @ Tue, 02 Aug 2022 10:09:43: start X-correlation... INFO @ Tue, 02 Aug 2022 10:09:43: end of X-cor INFO @ Tue, 02 Aug 2022 10:09:43: #2 finished! INFO @ Tue, 02 Aug 2022 10:09:43: #2 predicted fragment length is 200 bps INFO @ Tue, 02 Aug 2022 10:09:43: #2 alternative fragment length(s) may be 200 bps INFO @ Tue, 02 Aug 2022 10:09:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.20_model.r INFO @ Tue, 02 Aug 2022 10:09:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:09:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:09:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.05_peaks.xls INFO @ Tue, 02 Aug 2022 10:09:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:09:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.05_summits.bed INFO @ Tue, 02 Aug 2022 10:09:45: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (22379 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:09:49: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 10:10:01: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.10_peaks.xls INFO @ Tue, 02 Aug 2022 10:10:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:10:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.10_summits.bed INFO @ Tue, 02 Aug 2022 10:10:01: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (15637 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:10:17: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 10:10:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.20_peaks.xls INFO @ Tue, 02 Aug 2022 10:10:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:10:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925644/SRX10925644.20_summits.bed INFO @ Tue, 02 Aug 2022 10:10:29: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7926 records, 4 fields): 30 millis CompletedMACS2peakCalling