Job ID = 6455883 SRX = SRX3020549 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:24:06 prefetch.2.10.7: 1) Downloading 'SRR5850456'... 2020-06-21T10:24:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:39 prefetch.2.10.7: 'SRR5850456' is valid 2020-06-21T10:24:39 prefetch.2.10.7: 1) 'SRR5850456' was downloaded successfully 2020-06-21T10:24:39 prefetch.2.10.7: 'SRR5850456' has 0 unresolved dependencies Read 3631629 spots for SRR5850456/SRR5850456.sra Written 3631629 spots for SRR5850456/SRR5850456.sra 2020-06-21T10:25:04 prefetch.2.10.7: 1) Downloading 'SRR5850457'... 2020-06-21T10:25:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:25:43 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:25:43 prefetch.2.10.7: 'SRR5850457' is valid 2020-06-21T10:25:43 prefetch.2.10.7: 1) 'SRR5850457' was downloaded successfully 2020-06-21T10:25:43 prefetch.2.10.7: 'SRR5850457' has 0 unresolved dependencies Read 3599577 spots for SRR5850457/SRR5850457.sra Written 3599577 spots for SRR5850457/SRR5850457.sra 2020-06-21T10:26:08 prefetch.2.10.7: 1) Downloading 'SRR5850458'... 2020-06-21T10:26:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:26:38 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:26:39 prefetch.2.10.7: 'SRR5850458' is valid 2020-06-21T10:26:39 prefetch.2.10.7: 1) 'SRR5850458' was downloaded successfully 2020-06-21T10:26:39 prefetch.2.10.7: 'SRR5850458' has 0 unresolved dependencies Read 3594436 spots for SRR5850458/SRR5850458.sra Written 3594436 spots for SRR5850458/SRR5850458.sra 2020-06-21T10:27:04 prefetch.2.10.7: 1) Downloading 'SRR5850459'... 2020-06-21T10:27:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:27:33 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:27:33 prefetch.2.10.7: 'SRR5850459' is valid 2020-06-21T10:27:33 prefetch.2.10.7: 1) 'SRR5850459' was downloaded successfully 2020-06-21T10:27:33 prefetch.2.10.7: 'SRR5850459' has 0 unresolved dependencies Read 3564857 spots for SRR5850459/SRR5850459.sra Written 3564857 spots for SRR5850459/SRR5850459.sra 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: 00:03:52 14390499 reads; of these: 14390499 (100.00%) were unpaired; of these: 432640 (3.01%) aligned 0 times 10823455 (75.21%) aligned exactly 1 time 3134404 (21.78%) aligned >1 times 96.99% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3130952 / 13957859 = 0.2243 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 @ Sun, 21 Jun 2020 19:35:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.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 @ Sun, 21 Jun 2020 19:35:52: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:35:52: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:35:58: 1000000 INFO @ Sun, 21 Jun 2020 19:36:04: 2000000 INFO @ Sun, 21 Jun 2020 19:36:10: 3000000 INFO @ Sun, 21 Jun 2020 19:36:17: 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 @ Sun, 21 Jun 2020 19:36:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.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 @ Sun, 21 Jun 2020 19:36:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:36:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:36:23: 5000000 INFO @ Sun, 21 Jun 2020 19:36:29: 1000000 INFO @ Sun, 21 Jun 2020 19:36:30: 6000000 INFO @ Sun, 21 Jun 2020 19:36:36: 2000000 INFO @ Sun, 21 Jun 2020 19:36:37: 7000000 INFO @ Sun, 21 Jun 2020 19:36:42: 3000000 INFO @ Sun, 21 Jun 2020 19:36:44: 8000000 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 @ Sun, 21 Jun 2020 19:36:49: 4000000 INFO @ Sun, 21 Jun 2020 19:36:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.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 @ Sun, 21 Jun 2020 19:36:52: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:36:52: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:36:52: 9000000 INFO @ Sun, 21 Jun 2020 19:36:56: 5000000 INFO @ Sun, 21 Jun 2020 19:36:59: 1000000 INFO @ Sun, 21 Jun 2020 19:36:59: 10000000 INFO @ Sun, 21 Jun 2020 19:37:04: 6000000 INFO @ Sun, 21 Jun 2020 19:37:06: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:37:06: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:37:06: #1 total tags in treatment: 10826907 INFO @ Sun, 21 Jun 2020 19:37:06: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:37:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 19:37:06: 2000000 INFO @ Sun, 21 Jun 2020 19:37:06: #1 tags after filtering in treatment: 10826787 INFO @ Sun, 21 Jun 2020 19:37:06: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:37:06: #1 finished! INFO @ Sun, 21 Jun 2020 19:37:06: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:37:06: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:37:08: #2 number of paired peaks: 7319 INFO @ Sun, 21 Jun 2020 19:37:08: start model_add_line... INFO @ Sun, 21 Jun 2020 19:37:08: start X-correlation... INFO @ Sun, 21 Jun 2020 19:37:08: end of X-cor INFO @ Sun, 21 Jun 2020 19:37:08: #2 finished! INFO @ Sun, 21 Jun 2020 19:37:08: #2 predicted fragment length is 152 bps INFO @ Sun, 21 Jun 2020 19:37:08: #2 alternative fragment length(s) may be 152 bps INFO @ Sun, 21 Jun 2020 19:37:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.05_model.r INFO @ Sun, 21 Jun 2020 19:37:08: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:37:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:37:11: 7000000 INFO @ Sun, 21 Jun 2020 19:37:13: 3000000 INFO @ Sun, 21 Jun 2020 19:37:18: 8000000 INFO @ Sun, 21 Jun 2020 19:37:19: 4000000 INFO @ Sun, 21 Jun 2020 19:37:25: 9000000 INFO @ Sun, 21 Jun 2020 19:37:26: 5000000 INFO @ Sun, 21 Jun 2020 19:37:32: 10000000 INFO @ Sun, 21 Jun 2020 19:37:33: 6000000 INFO @ Sun, 21 Jun 2020 19:37:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:37:38: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:37:38: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:37:38: #1 total tags in treatment: 10826907 INFO @ Sun, 21 Jun 2020 19:37:38: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:37:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 19:37:39: #1 tags after filtering in treatment: 10826787 INFO @ Sun, 21 Jun 2020 19:37:39: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:37:39: #1 finished! INFO @ Sun, 21 Jun 2020 19:37:39: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:37:39: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:37:39: 7000000 INFO @ Sun, 21 Jun 2020 19:37:40: #2 number of paired peaks: 7319 INFO @ Sun, 21 Jun 2020 19:37:40: start model_add_line... INFO @ Sun, 21 Jun 2020 19:37:41: start X-correlation... INFO @ Sun, 21 Jun 2020 19:37:41: end of X-cor INFO @ Sun, 21 Jun 2020 19:37:41: #2 finished! INFO @ Sun, 21 Jun 2020 19:37:41: #2 predicted fragment length is 152 bps INFO @ Sun, 21 Jun 2020 19:37:41: #2 alternative fragment length(s) may be 152 bps INFO @ Sun, 21 Jun 2020 19:37:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.10_model.r INFO @ Sun, 21 Jun 2020 19:37:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:37:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:37:46: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:37:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:37:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:37:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.05_summits.bed INFO @ Sun, 21 Jun 2020 19:37:51: Done! pass1 - making usageList (506 chroms): 3 millis pass2 - checking and writing primary data (9349 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:37:52: 9000000 INFO @ Sun, 21 Jun 2020 19:37:59: 10000000 INFO @ Sun, 21 Jun 2020 19:38:04: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:38:04: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:38:04: #1 total tags in treatment: 10826907 INFO @ Sun, 21 Jun 2020 19:38:04: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:38:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 19:38:05: #1 tags after filtering in treatment: 10826787 INFO @ Sun, 21 Jun 2020 19:38:05: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:38:05: #1 finished! INFO @ Sun, 21 Jun 2020 19:38:05: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:38:06: #2 number of paired peaks: 7319 INFO @ Sun, 21 Jun 2020 19:38:06: start model_add_line... INFO @ Sun, 21 Jun 2020 19:38:06: start X-correlation... INFO @ Sun, 21 Jun 2020 19:38:06: end of X-cor INFO @ Sun, 21 Jun 2020 19:38:06: #2 finished! INFO @ Sun, 21 Jun 2020 19:38:06: #2 predicted fragment length is 152 bps INFO @ Sun, 21 Jun 2020 19:38:06: #2 alternative fragment length(s) may be 152 bps INFO @ Sun, 21 Jun 2020 19:38:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.20_model.r INFO @ Sun, 21 Jun 2020 19:38:06: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:38:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:38:09: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:38:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:38:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:38:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.10_summits.bed INFO @ Sun, 21 Jun 2020 19:38:22: Done! pass1 - making usageList (400 chroms): 2 millis pass2 - checking and writing primary data (8346 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:38:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:38:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:38:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:38:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020549/SRX3020549.20_summits.bed INFO @ Sun, 21 Jun 2020 19:38:48: Done! pass1 - making usageList (206 chroms): 2 millis pass2 - checking and writing primary data (6700 records, 4 fields): 20 millis CompletedMACS2peakCalling