Job ID = 14172086 SRX = SRX7628902 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 31126640 spots for SRR10963264/SRR10963264.sra Written 31126640 spots for SRR10963264/SRR10963264.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172630 ("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: 00:32:55 31126640 reads; of these: 31126640 (100.00%) were paired; of these: 11697499 (37.58%) aligned concordantly 0 times 14739587 (47.35%) aligned concordantly exactly 1 time 4689554 (15.07%) aligned concordantly >1 times ---- 11697499 pairs aligned concordantly 0 times; of these: 493813 (4.22%) aligned discordantly 1 time ---- 11203686 pairs aligned 0 times concordantly or discordantly; of these: 22407372 mates make up the pairs; of these: 20951688 (93.50%) aligned 0 times 769511 (3.43%) aligned exactly 1 time 686173 (3.06%) aligned >1 times 66.34% overall alignment rate Time searching: 00:32:55 Overall time: 00:32:55 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_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 693232 / 19903466 = 0.0348 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:49:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.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 @ Sat, 11 Dec 2021 14:49:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:49:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:49:49: 1000000 INFO @ Sat, 11 Dec 2021 14:49:54: 2000000 INFO @ Sat, 11 Dec 2021 14:49:59: 3000000 INFO @ Sat, 11 Dec 2021 14:50:04: 4000000 INFO @ Sat, 11 Dec 2021 14:50:09: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:50:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.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 @ Sat, 11 Dec 2021 14:50:14: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:50:14: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:50:14: 6000000 INFO @ Sat, 11 Dec 2021 14:50:19: 1000000 INFO @ Sat, 11 Dec 2021 14:50:19: 7000000 INFO @ Sat, 11 Dec 2021 14:50:24: 2000000 INFO @ Sat, 11 Dec 2021 14:50:24: 8000000 INFO @ Sat, 11 Dec 2021 14:50:29: 3000000 INFO @ Sat, 11 Dec 2021 14:50:29: 9000000 INFO @ Sat, 11 Dec 2021 14:50:34: 4000000 INFO @ Sat, 11 Dec 2021 14:50:34: 10000000 INFO @ Sat, 11 Dec 2021 14:50:39: 5000000 INFO @ Sat, 11 Dec 2021 14:50:39: 11000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:50:44: 6000000 INFO @ Sat, 11 Dec 2021 14:50:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.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 @ Sat, 11 Dec 2021 14:50:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:50:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:50:44: 12000000 INFO @ Sat, 11 Dec 2021 14:50:49: 7000000 INFO @ Sat, 11 Dec 2021 14:50:49: 1000000 INFO @ Sat, 11 Dec 2021 14:50:49: 13000000 INFO @ Sat, 11 Dec 2021 14:50:54: 8000000 INFO @ Sat, 11 Dec 2021 14:50:54: 2000000 INFO @ Sat, 11 Dec 2021 14:50:54: 14000000 INFO @ Sat, 11 Dec 2021 14:50:59: 9000000 INFO @ Sat, 11 Dec 2021 14:50:59: 3000000 INFO @ Sat, 11 Dec 2021 14:50:59: 15000000 INFO @ Sat, 11 Dec 2021 14:51:04: 10000000 INFO @ Sat, 11 Dec 2021 14:51:04: 4000000 INFO @ Sat, 11 Dec 2021 14:51:04: 16000000 INFO @ Sat, 11 Dec 2021 14:51:09: 11000000 INFO @ Sat, 11 Dec 2021 14:51:09: 5000000 INFO @ Sat, 11 Dec 2021 14:51:09: 17000000 INFO @ Sat, 11 Dec 2021 14:51:14: 12000000 INFO @ Sat, 11 Dec 2021 14:51:14: 6000000 INFO @ Sat, 11 Dec 2021 14:51:14: 18000000 INFO @ Sat, 11 Dec 2021 14:51:19: 13000000 INFO @ Sat, 11 Dec 2021 14:51:19: 7000000 INFO @ Sat, 11 Dec 2021 14:51:19: 19000000 INFO @ Sat, 11 Dec 2021 14:51:23: 14000000 INFO @ Sat, 11 Dec 2021 14:51:24: 8000000 INFO @ Sat, 11 Dec 2021 14:51:24: 20000000 INFO @ Sat, 11 Dec 2021 14:51:28: 15000000 INFO @ Sat, 11 Dec 2021 14:51:29: 9000000 INFO @ Sat, 11 Dec 2021 14:51:29: 21000000 INFO @ Sat, 11 Dec 2021 14:51:33: 16000000 INFO @ Sat, 11 Dec 2021 14:51:34: 10000000 INFO @ Sat, 11 Dec 2021 14:51:35: 22000000 INFO @ Sat, 11 Dec 2021 14:51:38: 17000000 INFO @ Sat, 11 Dec 2021 14:51:39: 11000000 INFO @ Sat, 11 Dec 2021 14:51:40: 23000000 INFO @ Sat, 11 Dec 2021 14:51:43: 18000000 INFO @ Sat, 11 Dec 2021 14:51:44: 12000000 INFO @ Sat, 11 Dec 2021 14:51:45: 24000000 INFO @ Sat, 11 Dec 2021 14:51:48: 19000000 INFO @ Sat, 11 Dec 2021 14:51:49: 13000000 INFO @ Sat, 11 Dec 2021 14:51:50: 25000000 INFO @ Sat, 11 Dec 2021 14:51:53: 20000000 INFO @ Sat, 11 Dec 2021 14:51:54: 14000000 INFO @ Sat, 11 Dec 2021 14:51:55: 26000000 INFO @ Sat, 11 Dec 2021 14:51:58: 21000000 INFO @ Sat, 11 Dec 2021 14:51:59: 15000000 INFO @ Sat, 11 Dec 2021 14:52:00: 27000000 INFO @ Sat, 11 Dec 2021 14:52:03: 22000000 INFO @ Sat, 11 Dec 2021 14:52:04: 16000000 INFO @ Sat, 11 Dec 2021 14:52:05: 28000000 INFO @ Sat, 11 Dec 2021 14:52:08: 23000000 INFO @ Sat, 11 Dec 2021 14:52:09: 17000000 INFO @ Sat, 11 Dec 2021 14:52:10: 29000000 INFO @ Sat, 11 Dec 2021 14:52:13: 24000000 INFO @ Sat, 11 Dec 2021 14:52:14: 18000000 INFO @ Sat, 11 Dec 2021 14:52:15: 30000000 INFO @ Sat, 11 Dec 2021 14:52:18: 25000000 INFO @ Sat, 11 Dec 2021 14:52:19: 19000000 INFO @ Sat, 11 Dec 2021 14:52:20: 31000000 INFO @ Sat, 11 Dec 2021 14:52:23: 26000000 INFO @ Sat, 11 Dec 2021 14:52:24: 20000000 INFO @ Sat, 11 Dec 2021 14:52:26: 32000000 INFO @ Sat, 11 Dec 2021 14:52:28: 27000000 INFO @ Sat, 11 Dec 2021 14:52:29: 21000000 INFO @ Sat, 11 Dec 2021 14:52:31: 33000000 INFO @ Sat, 11 Dec 2021 14:52:33: 28000000 INFO @ Sat, 11 Dec 2021 14:52:34: 22000000 INFO @ Sat, 11 Dec 2021 14:52:36: 34000000 INFO @ Sat, 11 Dec 2021 14:52:38: 29000000 INFO @ Sat, 11 Dec 2021 14:52:39: 23000000 INFO @ Sat, 11 Dec 2021 14:52:41: 35000000 INFO @ Sat, 11 Dec 2021 14:52:43: 30000000 INFO @ Sat, 11 Dec 2021 14:52:44: 24000000 INFO @ Sat, 11 Dec 2021 14:52:46: 36000000 INFO @ Sat, 11 Dec 2021 14:52:48: 31000000 INFO @ Sat, 11 Dec 2021 14:52:49: 25000000 INFO @ Sat, 11 Dec 2021 14:52:51: 37000000 INFO @ Sat, 11 Dec 2021 14:52:53: 32000000 INFO @ Sat, 11 Dec 2021 14:52:54: 26000000 INFO @ Sat, 11 Dec 2021 14:52:56: 38000000 INFO @ Sat, 11 Dec 2021 14:52:58: 33000000 INFO @ Sat, 11 Dec 2021 14:52:59: 27000000 INFO @ Sat, 11 Dec 2021 14:53:01: 39000000 INFO @ Sat, 11 Dec 2021 14:53:03: 34000000 INFO @ Sat, 11 Dec 2021 14:53:04: 28000000 INFO @ Sat, 11 Dec 2021 14:53:06: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:53:06: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:53:06: #1 total tags in treatment: 18743406 INFO @ Sat, 11 Dec 2021 14:53:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:53:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:53:06: #1 tags after filtering in treatment: 17160311 INFO @ Sat, 11 Dec 2021 14:53:06: #1 Redundant rate of treatment: 0.08 INFO @ Sat, 11 Dec 2021 14:53:06: #1 finished! INFO @ Sat, 11 Dec 2021 14:53:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:53:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:53:07: #2 number of paired peaks: 1356 INFO @ Sat, 11 Dec 2021 14:53:07: start model_add_line... INFO @ Sat, 11 Dec 2021 14:53:08: start X-correlation... INFO @ Sat, 11 Dec 2021 14:53:08: end of X-cor INFO @ Sat, 11 Dec 2021 14:53:08: #2 finished! INFO @ Sat, 11 Dec 2021 14:53:08: #2 predicted fragment length is 189 bps INFO @ Sat, 11 Dec 2021 14:53:08: #2 alternative fragment length(s) may be 4,189 bps INFO @ Sat, 11 Dec 2021 14:53:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.05_model.r INFO @ Sat, 11 Dec 2021 14:53:08: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:53:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:53:08: 35000000 INFO @ Sat, 11 Dec 2021 14:53:09: 29000000 INFO @ Sat, 11 Dec 2021 14:53:13: 36000000 INFO @ Sat, 11 Dec 2021 14:53:14: 30000000 INFO @ Sat, 11 Dec 2021 14:53:18: 37000000 INFO @ Sat, 11 Dec 2021 14:53:19: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:53:23: 38000000 INFO @ Sat, 11 Dec 2021 14:53:24: 32000000 INFO @ Sat, 11 Dec 2021 14:53:28: 39000000 INFO @ Sat, 11 Dec 2021 14:53:29: 33000000 INFO @ Sat, 11 Dec 2021 14:53:33: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:53:33: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:53:33: #1 total tags in treatment: 18743406 INFO @ Sat, 11 Dec 2021 14:53:33: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:53:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:53:33: #1 tags after filtering in treatment: 17160311 INFO @ Sat, 11 Dec 2021 14:53:33: #1 Redundant rate of treatment: 0.08 INFO @ Sat, 11 Dec 2021 14:53:33: #1 finished! INFO @ Sat, 11 Dec 2021 14:53:33: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:53:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:53:34: 34000000 INFO @ Sat, 11 Dec 2021 14:53:34: #2 number of paired peaks: 1356 INFO @ Sat, 11 Dec 2021 14:53:34: start model_add_line... INFO @ Sat, 11 Dec 2021 14:53:35: start X-correlation... INFO @ Sat, 11 Dec 2021 14:53:35: end of X-cor INFO @ Sat, 11 Dec 2021 14:53:35: #2 finished! INFO @ Sat, 11 Dec 2021 14:53:35: #2 predicted fragment length is 189 bps INFO @ Sat, 11 Dec 2021 14:53:35: #2 alternative fragment length(s) may be 4,189 bps INFO @ Sat, 11 Dec 2021 14:53:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.10_model.r INFO @ Sat, 11 Dec 2021 14:53:35: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:53:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:53:39: 35000000 INFO @ Sat, 11 Dec 2021 14:53:43: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:53:44: 36000000 INFO @ Sat, 11 Dec 2021 14:53:49: 37000000 INFO @ Sat, 11 Dec 2021 14:53:54: 38000000 INFO @ Sat, 11 Dec 2021 14:53:58: 39000000 INFO @ Sat, 11 Dec 2021 14:53:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.05_peaks.xls INFO @ Sat, 11 Dec 2021 14:53:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:53:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.05_summits.bed INFO @ Sat, 11 Dec 2021 14:53:59: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2371 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:54:03: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:54:03: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:54:03: #1 total tags in treatment: 18743406 INFO @ Sat, 11 Dec 2021 14:54:03: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:54:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:54:03: #1 tags after filtering in treatment: 17160311 INFO @ Sat, 11 Dec 2021 14:54:03: #1 Redundant rate of treatment: 0.08 INFO @ Sat, 11 Dec 2021 14:54:03: #1 finished! INFO @ Sat, 11 Dec 2021 14:54:03: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:54:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:54:05: #2 number of paired peaks: 1356 INFO @ Sat, 11 Dec 2021 14:54:05: start model_add_line... INFO @ Sat, 11 Dec 2021 14:54:05: start X-correlation... INFO @ Sat, 11 Dec 2021 14:54:05: end of X-cor INFO @ Sat, 11 Dec 2021 14:54:05: #2 finished! INFO @ Sat, 11 Dec 2021 14:54:05: #2 predicted fragment length is 189 bps INFO @ Sat, 11 Dec 2021 14:54:05: #2 alternative fragment length(s) may be 4,189 bps INFO @ Sat, 11 Dec 2021 14:54:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.20_model.r INFO @ Sat, 11 Dec 2021 14:54:05: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:54:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:54:11: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:54:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.10_peaks.xls INFO @ Sat, 11 Dec 2021 14:54:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:54:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.10_summits.bed INFO @ Sat, 11 Dec 2021 14:54:27: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1564 records, 4 fields): 3 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 14:54:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:54:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.20_peaks.xls INFO @ Sat, 11 Dec 2021 14:54:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:54:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628902/SRX7628902.20_summits.bed INFO @ Sat, 11 Dec 2021 14:54:56: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (942 records, 4 fields): 2 millis CompletedMACS2peakCalling