Job ID = 6626470 SRX = SRX7262222 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: 00:01:32 8270184 reads; of these: 8270184 (100.00%) were unpaired; of these: 2059469 (24.90%) aligned 0 times 4445294 (53.75%) aligned exactly 1 time 1765421 (21.35%) aligned >1 times 75.10% overall alignment rate Time searching: 00:01:32 Overall time: 00:01:32 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_rmdupse_core] 1309994 / 6210715 = 0.2109 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:07:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.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, 14 Jul 2020 07:07:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:07:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:07:32: 1000000 INFO @ Tue, 14 Jul 2020 07:07:37: 2000000 INFO @ Tue, 14 Jul 2020 07:07:42: 3000000 INFO @ Tue, 14 Jul 2020 07:07:47: 4000000 INFO @ Tue, 14 Jul 2020 07:07:51: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 07:07:51: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 07:07:51: #1 total tags in treatment: 4900721 INFO @ Tue, 14 Jul 2020 07:07:51: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:07:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:07:51: #1 tags after filtering in treatment: 4900721 INFO @ Tue, 14 Jul 2020 07:07:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:07:51: #1 finished! INFO @ Tue, 14 Jul 2020 07:07:51: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:07:52: #2 number of paired peaks: 2803 INFO @ Tue, 14 Jul 2020 07:07:52: start model_add_line... INFO @ Tue, 14 Jul 2020 07:07:52: start X-correlation... INFO @ Tue, 14 Jul 2020 07:07:52: end of X-cor INFO @ Tue, 14 Jul 2020 07:07:52: #2 finished! INFO @ Tue, 14 Jul 2020 07:07:52: #2 predicted fragment length is 155 bps INFO @ Tue, 14 Jul 2020 07:07:52: #2 alternative fragment length(s) may be 3,134,155 bps INFO @ Tue, 14 Jul 2020 07:07:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.05_model.r INFO @ Tue, 14 Jul 2020 07:07:52: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:07:52: #3 Pre-compute pvalue-qvalue table... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:07:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.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, 14 Jul 2020 07:07:56: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:07:56: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:08:02: 1000000 INFO @ Tue, 14 Jul 2020 07:08:03: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:08:07: 2000000 INFO @ Tue, 14 Jul 2020 07:08:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:08:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:08:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.05_summits.bed INFO @ Tue, 14 Jul 2020 07:08:08: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1347 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:08:12: 3000000 INFO @ Tue, 14 Jul 2020 07:08:17: 4000000 INFO @ Tue, 14 Jul 2020 07:08:21: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 07:08:21: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 07:08:21: #1 total tags in treatment: 4900721 INFO @ Tue, 14 Jul 2020 07:08:21: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:08:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:08:21: #1 tags after filtering in treatment: 4900721 INFO @ Tue, 14 Jul 2020 07:08:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:08:21: #1 finished! INFO @ Tue, 14 Jul 2020 07:08:21: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:08:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:08:22: #2 number of paired peaks: 2803 INFO @ Tue, 14 Jul 2020 07:08:22: start model_add_line... INFO @ Tue, 14 Jul 2020 07:08:22: start X-correlation... INFO @ Tue, 14 Jul 2020 07:08:22: end of X-cor INFO @ Tue, 14 Jul 2020 07:08:22: #2 finished! INFO @ Tue, 14 Jul 2020 07:08:22: #2 predicted fragment length is 155 bps INFO @ Tue, 14 Jul 2020 07:08:22: #2 alternative fragment length(s) may be 3,134,155 bps INFO @ Tue, 14 Jul 2020 07:08:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.10_model.r INFO @ Tue, 14 Jul 2020 07:08:22: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:08:22: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:08:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.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, 14 Jul 2020 07:08:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:08:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:08:33: 1000000 INFO @ Tue, 14 Jul 2020 07:08:33: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:08:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:08:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:08:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.10_summits.bed INFO @ Tue, 14 Jul 2020 07:08:38: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (451 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:08:39: 2000000 INFO @ Tue, 14 Jul 2020 07:08:45: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:08:50: 4000000 INFO @ Tue, 14 Jul 2020 07:08:56: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 07:08:56: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 07:08:56: #1 total tags in treatment: 4900721 INFO @ Tue, 14 Jul 2020 07:08:56: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:08:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:08:56: #1 tags after filtering in treatment: 4900721 INFO @ Tue, 14 Jul 2020 07:08:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:08:56: #1 finished! INFO @ Tue, 14 Jul 2020 07:08:56: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:08:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:08:56: #2 number of paired peaks: 2803 INFO @ Tue, 14 Jul 2020 07:08:56: start model_add_line... INFO @ Tue, 14 Jul 2020 07:08:56: start X-correlation... INFO @ Tue, 14 Jul 2020 07:08:57: end of X-cor INFO @ Tue, 14 Jul 2020 07:08:57: #2 finished! INFO @ Tue, 14 Jul 2020 07:08:57: #2 predicted fragment length is 155 bps INFO @ Tue, 14 Jul 2020 07:08:57: #2 alternative fragment length(s) may be 3,134,155 bps INFO @ Tue, 14 Jul 2020 07:08:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.20_model.r INFO @ Tue, 14 Jul 2020 07:08:57: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:08:57: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:09:08: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:09:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:09:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:09:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7262222/SRX7262222.20_summits.bed INFO @ Tue, 14 Jul 2020 07:09:14: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (191 records, 4 fields): 18 millis CompletedMACS2peakCalling