Job ID = 6453211 SRX = SRX1085380 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:03:53 prefetch.2.10.7: 1) Downloading 'SRR2090179'... 2020-06-21T08:03:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:05:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:05:58 prefetch.2.10.7: 'SRR2090179' is valid 2020-06-21T08:05:58 prefetch.2.10.7: 1) 'SRR2090179' was downloaded successfully Read 25907828 spots for SRR2090179/SRR2090179.sra Written 25907828 spots for SRR2090179/SRR2090179.sra 2020-06-21T08:07:15 prefetch.2.10.7: 1) Downloading 'SRR2090180'... 2020-06-21T08:07:15 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:13:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:13:19 prefetch.2.10.7: 1) 'SRR2090180' was downloaded successfully Read 21295859 spots for SRR2090180/SRR2090180.sra Written 21295859 spots for SRR2090180/SRR2090180.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: 00:11:48 47203687 reads; of these: 47203687 (100.00%) were unpaired; of these: 20337107 (43.08%) aligned 0 times 23625464 (50.05%) aligned exactly 1 time 3241116 (6.87%) aligned >1 times 56.92% overall alignment rate Time searching: 00:11:48 Overall time: 00:11:48 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 12 files... [bam_rmdupse_core] 8445083 / 26866580 = 0.3143 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 17:34:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.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 17:34:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:34:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:34:38: 1000000 INFO @ Sun, 21 Jun 2020 17:34:43: 2000000 INFO @ Sun, 21 Jun 2020 17:34:49: 3000000 INFO @ Sun, 21 Jun 2020 17:34:54: 4000000 INFO @ Sun, 21 Jun 2020 17:34:59: 5000000 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 17:35:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.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 17:35:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:35:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:35:05: 6000000 INFO @ Sun, 21 Jun 2020 17:35:08: 1000000 INFO @ Sun, 21 Jun 2020 17:35:10: 7000000 INFO @ Sun, 21 Jun 2020 17:35:13: 2000000 INFO @ Sun, 21 Jun 2020 17:35:16: 8000000 INFO @ Sun, 21 Jun 2020 17:35:19: 3000000 INFO @ Sun, 21 Jun 2020 17:35:21: 9000000 INFO @ Sun, 21 Jun 2020 17:35:24: 4000000 INFO @ Sun, 21 Jun 2020 17:35:27: 10000000 INFO @ Sun, 21 Jun 2020 17:35:29: 5000000 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 17:35:32: 11000000 INFO @ Sun, 21 Jun 2020 17:35:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.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 17:35:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:35:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:35:35: 6000000 INFO @ Sun, 21 Jun 2020 17:35:38: 12000000 INFO @ Sun, 21 Jun 2020 17:35:38: 1000000 INFO @ Sun, 21 Jun 2020 17:35:40: 7000000 INFO @ Sun, 21 Jun 2020 17:35:43: 2000000 INFO @ Sun, 21 Jun 2020 17:35:43: 13000000 INFO @ Sun, 21 Jun 2020 17:35:46: 8000000 INFO @ Sun, 21 Jun 2020 17:35:49: 3000000 INFO @ Sun, 21 Jun 2020 17:35:49: 14000000 INFO @ Sun, 21 Jun 2020 17:35:51: 9000000 INFO @ Sun, 21 Jun 2020 17:35:54: 4000000 INFO @ Sun, 21 Jun 2020 17:35:55: 15000000 INFO @ Sun, 21 Jun 2020 17:35:57: 10000000 INFO @ Sun, 21 Jun 2020 17:36:00: 5000000 INFO @ Sun, 21 Jun 2020 17:36:00: 16000000 INFO @ Sun, 21 Jun 2020 17:36:02: 11000000 INFO @ Sun, 21 Jun 2020 17:36:05: 6000000 INFO @ Sun, 21 Jun 2020 17:36:06: 17000000 INFO @ Sun, 21 Jun 2020 17:36:08: 12000000 INFO @ Sun, 21 Jun 2020 17:36:10: 7000000 INFO @ Sun, 21 Jun 2020 17:36:11: 18000000 INFO @ Sun, 21 Jun 2020 17:36:13: 13000000 INFO @ Sun, 21 Jun 2020 17:36:14: #1 tag size is determined as 70 bps INFO @ Sun, 21 Jun 2020 17:36:14: #1 tag size = 70 INFO @ Sun, 21 Jun 2020 17:36:14: #1 total tags in treatment: 18421497 INFO @ Sun, 21 Jun 2020 17:36:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:36:14: #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 17:36:15: #1 tags after filtering in treatment: 18421474 INFO @ Sun, 21 Jun 2020 17:36:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:36:15: #1 finished! INFO @ Sun, 21 Jun 2020 17:36:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:36:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:36:16: 8000000 INFO @ Sun, 21 Jun 2020 17:36:16: #2 number of paired peaks: 3431 INFO @ Sun, 21 Jun 2020 17:36:16: start model_add_line... INFO @ Sun, 21 Jun 2020 17:36:16: start X-correlation... INFO @ Sun, 21 Jun 2020 17:36:16: end of X-cor INFO @ Sun, 21 Jun 2020 17:36:16: #2 finished! INFO @ Sun, 21 Jun 2020 17:36:16: #2 predicted fragment length is 187 bps INFO @ Sun, 21 Jun 2020 17:36:16: #2 alternative fragment length(s) may be 187 bps INFO @ Sun, 21 Jun 2020 17:36:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.05_model.r INFO @ Sun, 21 Jun 2020 17:36:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:36:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:36:19: 14000000 INFO @ Sun, 21 Jun 2020 17:36:21: 9000000 INFO @ Sun, 21 Jun 2020 17:36:24: 15000000 INFO @ Sun, 21 Jun 2020 17:36:27: 10000000 INFO @ Sun, 21 Jun 2020 17:36:30: 16000000 INFO @ Sun, 21 Jun 2020 17:36:32: 11000000 INFO @ Sun, 21 Jun 2020 17:36:35: 17000000 INFO @ Sun, 21 Jun 2020 17:36:38: 12000000 INFO @ Sun, 21 Jun 2020 17:36:41: 18000000 INFO @ Sun, 21 Jun 2020 17:36:43: 13000000 INFO @ Sun, 21 Jun 2020 17:36:43: #1 tag size is determined as 70 bps INFO @ Sun, 21 Jun 2020 17:36:43: #1 tag size = 70 INFO @ Sun, 21 Jun 2020 17:36:43: #1 total tags in treatment: 18421497 INFO @ Sun, 21 Jun 2020 17:36:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:36:43: #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 17:36:44: #1 tags after filtering in treatment: 18421474 INFO @ Sun, 21 Jun 2020 17:36:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:36:44: #1 finished! INFO @ Sun, 21 Jun 2020 17:36:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:36:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:36:45: #2 number of paired peaks: 3431 INFO @ Sun, 21 Jun 2020 17:36:45: start model_add_line... INFO @ Sun, 21 Jun 2020 17:36:46: start X-correlation... INFO @ Sun, 21 Jun 2020 17:36:46: end of X-cor INFO @ Sun, 21 Jun 2020 17:36:46: #2 finished! INFO @ Sun, 21 Jun 2020 17:36:46: #2 predicted fragment length is 187 bps INFO @ Sun, 21 Jun 2020 17:36:46: #2 alternative fragment length(s) may be 187 bps INFO @ Sun, 21 Jun 2020 17:36:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.10_model.r INFO @ Sun, 21 Jun 2020 17:36:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:36:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:36:48: 14000000 INFO @ Sun, 21 Jun 2020 17:36:54: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:37:00: 16000000 INFO @ Sun, 21 Jun 2020 17:37:05: 17000000 INFO @ Sun, 21 Jun 2020 17:37:05: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:37:10: 18000000 INFO @ Sun, 21 Jun 2020 17:37:13: #1 tag size is determined as 70 bps INFO @ Sun, 21 Jun 2020 17:37:13: #1 tag size = 70 INFO @ Sun, 21 Jun 2020 17:37:13: #1 total tags in treatment: 18421497 INFO @ Sun, 21 Jun 2020 17:37:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:37:13: #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 17:37:14: #1 tags after filtering in treatment: 18421474 INFO @ Sun, 21 Jun 2020 17:37:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:37:14: #1 finished! INFO @ Sun, 21 Jun 2020 17:37:14: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:37:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:37:15: #2 number of paired peaks: 3431 INFO @ Sun, 21 Jun 2020 17:37:15: start model_add_line... INFO @ Sun, 21 Jun 2020 17:37:15: start X-correlation... INFO @ Sun, 21 Jun 2020 17:37:15: end of X-cor INFO @ Sun, 21 Jun 2020 17:37:15: #2 finished! INFO @ Sun, 21 Jun 2020 17:37:15: #2 predicted fragment length is 187 bps INFO @ Sun, 21 Jun 2020 17:37:15: #2 alternative fragment length(s) may be 187 bps INFO @ Sun, 21 Jun 2020 17:37:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.20_model.r INFO @ Sun, 21 Jun 2020 17:37:15: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:37:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:37:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:37:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:37:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.05_summits.bed INFO @ Sun, 21 Jun 2020 17:37:28: Done! pass1 - making usageList (343 chroms): 2 millis pass2 - checking and writing primary data (13792 records, 4 fields): 22 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:37:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:37:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:37:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:37:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.10_summits.bed INFO @ Sun, 21 Jun 2020 17:37:57: Done! pass1 - making usageList (187 chroms): 2 millis pass2 - checking and writing primary data (9713 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:38:03: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:38:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:38:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:38:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1085380/SRX1085380.20_summits.bed INFO @ Sun, 21 Jun 2020 17:38:25: Done! pass1 - making usageList (104 chroms): 2 millis pass2 - checking and writing primary data (6433 records, 4 fields): 10 millis CompletedMACS2peakCalling