Job ID = 6626583 SRX = SRX7262527 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 29205508 spots for SRR10582154/SRR10582154.sra Written 29205508 spots for SRR10582154/SRR10582154.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626711 ("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: 00:05:57 29205508 reads; of these: 29205508 (100.00%) were unpaired; of these: 22544838 (77.19%) aligned 0 times 5521948 (18.91%) aligned exactly 1 time 1138722 (3.90%) aligned >1 times 22.81% overall alignment rate Time searching: 00:05:57 Overall time: 00:05:57 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] 1288184 / 6660670 = 0.1934 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 07:47:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.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 07:47:55: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:47:55: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:48:01: 1000000 INFO @ Tue, 14 Jul 2020 07:48:07: 2000000 INFO @ Tue, 14 Jul 2020 07:48:12: 3000000 INFO @ Tue, 14 Jul 2020 07:48:18: 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 07:48:24: 5000000 INFO @ Tue, 14 Jul 2020 07:48:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.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 07:48:25: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:48:25: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:48:26: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:48:26: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:48:26: #1 total tags in treatment: 5372486 INFO @ Tue, 14 Jul 2020 07:48:26: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:48:26: #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 07:48:26: #1 tags after filtering in treatment: 5372486 INFO @ Tue, 14 Jul 2020 07:48:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:48:26: #1 finished! INFO @ Tue, 14 Jul 2020 07:48:26: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:48:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:48:27: #2 number of paired peaks: 9435 INFO @ Tue, 14 Jul 2020 07:48:27: start model_add_line... INFO @ Tue, 14 Jul 2020 07:48:27: start X-correlation... INFO @ Tue, 14 Jul 2020 07:48:27: end of X-cor INFO @ Tue, 14 Jul 2020 07:48:27: #2 finished! INFO @ Tue, 14 Jul 2020 07:48:27: #2 predicted fragment length is 208 bps INFO @ Tue, 14 Jul 2020 07:48:27: #2 alternative fragment length(s) may be 208 bps INFO @ Tue, 14 Jul 2020 07:48:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.05_model.r INFO @ Tue, 14 Jul 2020 07:48:27: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:48:27: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:48:31: 1000000 INFO @ Tue, 14 Jul 2020 07:48:37: 2000000 INFO @ Tue, 14 Jul 2020 07:48:43: 3000000 INFO @ Tue, 14 Jul 2020 07:48:44: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:48:48: 4000000 INFO @ Tue, 14 Jul 2020 07:48:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:48:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:48:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.05_summits.bed INFO @ Tue, 14 Jul 2020 07:48:51: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (6626 records, 4 fields): 8 millis CompletedMACS2peakCalling 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 07:48:54: 5000000 INFO @ Tue, 14 Jul 2020 07:48:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.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 07:48:55: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:48:55: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:48:57: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:48:57: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:48:57: #1 total tags in treatment: 5372486 INFO @ Tue, 14 Jul 2020 07:48:57: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:48:57: #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 07:48:57: #1 tags after filtering in treatment: 5372486 INFO @ Tue, 14 Jul 2020 07:48:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:48:57: #1 finished! INFO @ Tue, 14 Jul 2020 07:48:57: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:48:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:48:58: #2 number of paired peaks: 9435 INFO @ Tue, 14 Jul 2020 07:48:58: start model_add_line... INFO @ Tue, 14 Jul 2020 07:48:58: start X-correlation... INFO @ Tue, 14 Jul 2020 07:48:58: end of X-cor INFO @ Tue, 14 Jul 2020 07:48:58: #2 finished! INFO @ Tue, 14 Jul 2020 07:48:58: #2 predicted fragment length is 208 bps INFO @ Tue, 14 Jul 2020 07:48:58: #2 alternative fragment length(s) may be 208 bps INFO @ Tue, 14 Jul 2020 07:48:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.10_model.r INFO @ Tue, 14 Jul 2020 07:48:58: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:48:58: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:49:00: 1000000 INFO @ Tue, 14 Jul 2020 07:49:05: 2000000 INFO @ Tue, 14 Jul 2020 07:49:10: 3000000 INFO @ Tue, 14 Jul 2020 07:49:15: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:49:15: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:49:20: 5000000 INFO @ Tue, 14 Jul 2020 07:49:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:49:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:49:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.10_summits.bed INFO @ Tue, 14 Jul 2020 07:49:22: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4999 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:49:22: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:49:22: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:49:22: #1 total tags in treatment: 5372486 INFO @ Tue, 14 Jul 2020 07:49:22: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:49:22: #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 07:49:22: #1 tags after filtering in treatment: 5372486 INFO @ Tue, 14 Jul 2020 07:49:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:49:22: #1 finished! INFO @ Tue, 14 Jul 2020 07:49:22: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:49:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:49:23: #2 number of paired peaks: 9435 INFO @ Tue, 14 Jul 2020 07:49:23: start model_add_line... INFO @ Tue, 14 Jul 2020 07:49:23: start X-correlation... INFO @ Tue, 14 Jul 2020 07:49:23: end of X-cor INFO @ Tue, 14 Jul 2020 07:49:23: #2 finished! INFO @ Tue, 14 Jul 2020 07:49:23: #2 predicted fragment length is 208 bps INFO @ Tue, 14 Jul 2020 07:49:23: #2 alternative fragment length(s) may be 208 bps INFO @ Tue, 14 Jul 2020 07:49:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.20_model.r INFO @ Tue, 14 Jul 2020 07:49:23: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:49:23: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:49:41: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:49:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:49:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:49:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262527/SRX7262527.20_summits.bed INFO @ Tue, 14 Jul 2020 07:49:48: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3390 records, 4 fields): 11 millis CompletedMACS2peakCalling