Job ID = 6626587 SRX = SRX7262531 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 27312602 spots for SRR10582158/SRR10582158.sra Written 27312602 spots for SRR10582158/SRR10582158.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626716 ("srTdm6") 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: 00:06:18 27312602 reads; of these: 27312602 (100.00%) were unpaired; of these: 19652266 (71.95%) aligned 0 times 6355629 (23.27%) aligned exactly 1 time 1304707 (4.78%) aligned >1 times 28.05% overall alignment rate Time searching: 00:06:18 Overall time: 00:06:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 1547703 / 7660336 = 0.2020 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 07:49:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.bam'] # control file = None # effective genome size = 1.20e+08 # 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 07:49:24: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:24: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:31: 1000000 INFO @ Tue, 14 Jul 2020 07:49:37: 2000000 INFO @ Tue, 14 Jul 2020 07:49:43: 3000000 INFO @ Tue, 14 Jul 2020 07:49:49: 4000000 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 07:49:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.bam'] # control file = None # effective genome size = 1.20e+08 # 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 07:49:54: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:54: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:55: 5000000 INFO @ Tue, 14 Jul 2020 07:50:01: 1000000 INFO @ Tue, 14 Jul 2020 07:50:01: 6000000 INFO @ Tue, 14 Jul 2020 07:50:02: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:50:02: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:50:02: #1 total tags in treatment: 6112633 INFO @ Tue, 14 Jul 2020 07:50:02: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:50:02: #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 07:50:02: #1 tags after filtering in treatment: 6112633 INFO @ Tue, 14 Jul 2020 07:50:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:50:02: #1 finished! INFO @ Tue, 14 Jul 2020 07:50:02: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:50:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:50:03: #2 number of paired peaks: 9492 INFO @ Tue, 14 Jul 2020 07:50:03: start model_add_line... INFO @ Tue, 14 Jul 2020 07:50:03: start X-correlation... INFO @ Tue, 14 Jul 2020 07:50:03: end of X-cor INFO @ Tue, 14 Jul 2020 07:50:03: #2 finished! INFO @ Tue, 14 Jul 2020 07:50:03: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 07:50:03: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 07:50:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.05_model.r INFO @ Tue, 14 Jul 2020 07:50:03: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:50:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:50:07: 2000000 INFO @ Tue, 14 Jul 2020 07:50:13: 3000000 INFO @ Tue, 14 Jul 2020 07:50:19: 4000000 INFO @ Tue, 14 Jul 2020 07:50:22: #3 Call peaks for each chromosome... 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 07:50:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.bam'] # control file = None # effective genome size = 1.20e+08 # 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 07:50:24: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:50:24: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:50:25: 5000000 INFO @ Tue, 14 Jul 2020 07:50:31: 1000000 INFO @ Tue, 14 Jul 2020 07:50:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:50:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:50:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.05_summits.bed INFO @ Tue, 14 Jul 2020 07:50:32: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (7048 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:50:32: 6000000 INFO @ Tue, 14 Jul 2020 07:50:33: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:50:33: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:50:33: #1 total tags in treatment: 6112633 INFO @ Tue, 14 Jul 2020 07:50:33: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:50:33: #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 07:50:33: #1 tags after filtering in treatment: 6112633 INFO @ Tue, 14 Jul 2020 07:50:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:50:33: #1 finished! INFO @ Tue, 14 Jul 2020 07:50:33: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:50:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:50:34: #2 number of paired peaks: 9492 INFO @ Tue, 14 Jul 2020 07:50:34: start model_add_line... INFO @ Tue, 14 Jul 2020 07:50:34: start X-correlation... INFO @ Tue, 14 Jul 2020 07:50:34: end of X-cor INFO @ Tue, 14 Jul 2020 07:50:34: #2 finished! INFO @ Tue, 14 Jul 2020 07:50:34: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 07:50:34: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 07:50:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.10_model.r INFO @ Tue, 14 Jul 2020 07:50:34: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:50:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:50:37: 2000000 INFO @ Tue, 14 Jul 2020 07:50:44: 3000000 INFO @ Tue, 14 Jul 2020 07:50:50: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:50:53: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:50:56: 5000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:51:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:51:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:51:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.10_summits.bed INFO @ Tue, 14 Jul 2020 07:51:02: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5341 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:51:02: 6000000 INFO @ Tue, 14 Jul 2020 07:51:03: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:51:03: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:51:03: #1 total tags in treatment: 6112633 INFO @ Tue, 14 Jul 2020 07:51:03: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:51:03: #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 07:51:03: #1 tags after filtering in treatment: 6112633 INFO @ Tue, 14 Jul 2020 07:51:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:51:03: #1 finished! INFO @ Tue, 14 Jul 2020 07:51:03: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:51:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:51:04: #2 number of paired peaks: 9492 INFO @ Tue, 14 Jul 2020 07:51:04: start model_add_line... INFO @ Tue, 14 Jul 2020 07:51:04: start X-correlation... INFO @ Tue, 14 Jul 2020 07:51:04: end of X-cor INFO @ Tue, 14 Jul 2020 07:51:04: #2 finished! INFO @ Tue, 14 Jul 2020 07:51:04: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 07:51:04: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 07:51:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.20_model.r INFO @ Tue, 14 Jul 2020 07:51:04: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:51:04: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:51:23: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:51:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:51:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:51:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262531/SRX7262531.20_summits.bed INFO @ Tue, 14 Jul 2020 07:51:31: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3691 records, 4 fields): 14 millis CompletedMACS2peakCalling