Job ID = 12265456 SRX = SRX7192192 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 30155351 spots for SRR10503236/SRR10503236.sra Written 30155351 spots for SRR10503236/SRR10503236.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265719 ("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: 00:36:36 30155351 reads; of these: 30155351 (100.00%) were paired; of these: 7508351 (24.90%) aligned concordantly 0 times 19111302 (63.38%) aligned concordantly exactly 1 time 3535698 (11.72%) aligned concordantly >1 times ---- 7508351 pairs aligned concordantly 0 times; of these: 1061708 (14.14%) aligned discordantly 1 time ---- 6446643 pairs aligned 0 times concordantly or discordantly; of these: 12893286 mates make up the pairs; of these: 11943094 (92.63%) aligned 0 times 645490 (5.01%) aligned exactly 1 time 304702 (2.36%) aligned >1 times 80.20% overall alignment rate Time searching: 00:36:36 Overall time: 00:36:36 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 20 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] 12522248 / 23607919 = 0.5304 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 08:01:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.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, 03 Apr 2021 08:01:27: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:01:27: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:01:34: 1000000 INFO @ Sat, 03 Apr 2021 08:01:40: 2000000 INFO @ Sat, 03 Apr 2021 08:01:46: 3000000 INFO @ Sat, 03 Apr 2021 08:01:53: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 08:01:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.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, 03 Apr 2021 08:01:57: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:01:57: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:02:01: 5000000 INFO @ Sat, 03 Apr 2021 08:02:04: 1000000 INFO @ Sat, 03 Apr 2021 08:02:09: 6000000 INFO @ Sat, 03 Apr 2021 08:02:10: 2000000 INFO @ Sat, 03 Apr 2021 08:02:16: 7000000 INFO @ Sat, 03 Apr 2021 08:02:17: 3000000 INFO @ Sat, 03 Apr 2021 08:02:23: 8000000 INFO @ Sat, 03 Apr 2021 08:02:24: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 08:02:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.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, 03 Apr 2021 08:02:27: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:02:27: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:02:30: 9000000 INFO @ Sat, 03 Apr 2021 08:02:32: 5000000 INFO @ Sat, 03 Apr 2021 08:02:35: 1000000 INFO @ Sat, 03 Apr 2021 08:02:38: 10000000 INFO @ Sat, 03 Apr 2021 08:02:40: 6000000 INFO @ Sat, 03 Apr 2021 08:02:43: 2000000 INFO @ Sat, 03 Apr 2021 08:02:46: 11000000 INFO @ Sat, 03 Apr 2021 08:02:47: 7000000 INFO @ Sat, 03 Apr 2021 08:02:50: 3000000 INFO @ Sat, 03 Apr 2021 08:02:54: 12000000 INFO @ Sat, 03 Apr 2021 08:02:54: 8000000 INFO @ Sat, 03 Apr 2021 08:02:59: 4000000 INFO @ Sat, 03 Apr 2021 08:03:01: 9000000 INFO @ Sat, 03 Apr 2021 08:03:02: 13000000 INFO @ Sat, 03 Apr 2021 08:03:07: 5000000 INFO @ Sat, 03 Apr 2021 08:03:08: 10000000 INFO @ Sat, 03 Apr 2021 08:03:11: 14000000 INFO @ Sat, 03 Apr 2021 08:03:16: 11000000 INFO @ Sat, 03 Apr 2021 08:03:16: 6000000 INFO @ Sat, 03 Apr 2021 08:03:20: 15000000 INFO @ Sat, 03 Apr 2021 08:03:24: 12000000 INFO @ Sat, 03 Apr 2021 08:03:24: 7000000 INFO @ Sat, 03 Apr 2021 08:03:28: 16000000 INFO @ Sat, 03 Apr 2021 08:03:31: 13000000 INFO @ Sat, 03 Apr 2021 08:03:32: 8000000 INFO @ Sat, 03 Apr 2021 08:03:36: 17000000 INFO @ Sat, 03 Apr 2021 08:03:40: 14000000 INFO @ Sat, 03 Apr 2021 08:03:40: 9000000 INFO @ Sat, 03 Apr 2021 08:03:45: 18000000 INFO @ Sat, 03 Apr 2021 08:03:48: 15000000 INFO @ Sat, 03 Apr 2021 08:03:49: 10000000 INFO @ Sat, 03 Apr 2021 08:03:55: 19000000 INFO @ Sat, 03 Apr 2021 08:03:56: 16000000 INFO @ Sat, 03 Apr 2021 08:03:57: 11000000 INFO @ Sat, 03 Apr 2021 08:04:03: 20000000 INFO @ Sat, 03 Apr 2021 08:04:05: 17000000 INFO @ Sat, 03 Apr 2021 08:04:05: 12000000 INFO @ Sat, 03 Apr 2021 08:04:12: 21000000 INFO @ Sat, 03 Apr 2021 08:04:12: 18000000 INFO @ Sat, 03 Apr 2021 08:04:14: 13000000 INFO @ Sat, 03 Apr 2021 08:04:20: 22000000 INFO @ Sat, 03 Apr 2021 08:04:20: 19000000 INFO @ Sat, 03 Apr 2021 08:04:22: 14000000 INFO @ Sat, 03 Apr 2021 08:04:29: 23000000 INFO @ Sat, 03 Apr 2021 08:04:29: 20000000 INFO @ Sat, 03 Apr 2021 08:04:31: 15000000 INFO @ Sat, 03 Apr 2021 08:04:31: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 08:04:31: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 08:04:31: #1 total tags in treatment: 10436240 INFO @ Sat, 03 Apr 2021 08:04:31: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:04:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 08:04:32: #1 tags after filtering in treatment: 7557880 INFO @ Sat, 03 Apr 2021 08:04:32: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 03 Apr 2021 08:04:32: #1 finished! INFO @ Sat, 03 Apr 2021 08:04:32: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:04:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:04:33: #2 number of paired peaks: 3661 INFO @ Sat, 03 Apr 2021 08:04:33: start model_add_line... INFO @ Sat, 03 Apr 2021 08:04:33: start X-correlation... INFO @ Sat, 03 Apr 2021 08:04:33: end of X-cor INFO @ Sat, 03 Apr 2021 08:04:33: #2 finished! INFO @ Sat, 03 Apr 2021 08:04:33: #2 predicted fragment length is 124 bps INFO @ Sat, 03 Apr 2021 08:04:33: #2 alternative fragment length(s) may be 124 bps INFO @ Sat, 03 Apr 2021 08:04:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.05_model.r INFO @ Sat, 03 Apr 2021 08:04:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:04:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:04:37: 21000000 INFO @ Sat, 03 Apr 2021 08:04:39: 16000000 INFO @ Sat, 03 Apr 2021 08:04:45: 22000000 INFO @ Sat, 03 Apr 2021 08:04:48: 17000000 INFO @ Sat, 03 Apr 2021 08:04:52: 23000000 INFO @ Sat, 03 Apr 2021 08:04:55: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 08:04:55: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 08:04:55: #1 total tags in treatment: 10436240 INFO @ Sat, 03 Apr 2021 08:04:55: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:04:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 08:04:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:04:55: #1 tags after filtering in treatment: 7557880 INFO @ Sat, 03 Apr 2021 08:04:55: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 03 Apr 2021 08:04:55: #1 finished! INFO @ Sat, 03 Apr 2021 08:04:55: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:04:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:04:55: 18000000 INFO @ Sat, 03 Apr 2021 08:04:56: #2 number of paired peaks: 3661 INFO @ Sat, 03 Apr 2021 08:04:56: start model_add_line... INFO @ Sat, 03 Apr 2021 08:04:56: start X-correlation... INFO @ Sat, 03 Apr 2021 08:04:56: end of X-cor INFO @ Sat, 03 Apr 2021 08:04:56: #2 finished! INFO @ Sat, 03 Apr 2021 08:04:56: #2 predicted fragment length is 124 bps INFO @ Sat, 03 Apr 2021 08:04:56: #2 alternative fragment length(s) may be 124 bps INFO @ Sat, 03 Apr 2021 08:04:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.10_model.r INFO @ Sat, 03 Apr 2021 08:04:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:04:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:05:03: 19000000 INFO @ Sat, 03 Apr 2021 08:05:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:05:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:05:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.05_summits.bed INFO @ Sat, 03 Apr 2021 08:05:07: Done! pass1 - making usageList (15 chroms): 13 millis pass2 - checking and writing primary data (13446 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:05:10: 20000000 INFO @ Sat, 03 Apr 2021 08:05:17: 21000000 INFO @ Sat, 03 Apr 2021 08:05:19: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:05:24: 22000000 INFO @ Sat, 03 Apr 2021 08:05:31: 23000000 INFO @ Sat, 03 Apr 2021 08:05:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:05:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:05:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.10_summits.bed INFO @ Sat, 03 Apr 2021 08:05:31: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8457 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:05:34: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 08:05:34: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 08:05:34: #1 total tags in treatment: 10436240 INFO @ Sat, 03 Apr 2021 08:05:34: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:05:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 08:05:34: #1 tags after filtering in treatment: 7557880 INFO @ Sat, 03 Apr 2021 08:05:34: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 03 Apr 2021 08:05:34: #1 finished! INFO @ Sat, 03 Apr 2021 08:05:34: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:05:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:05:35: #2 number of paired peaks: 3661 INFO @ Sat, 03 Apr 2021 08:05:35: start model_add_line... INFO @ Sat, 03 Apr 2021 08:05:35: start X-correlation... INFO @ Sat, 03 Apr 2021 08:05:35: end of X-cor INFO @ Sat, 03 Apr 2021 08:05:35: #2 finished! INFO @ Sat, 03 Apr 2021 08:05:35: #2 predicted fragment length is 124 bps INFO @ Sat, 03 Apr 2021 08:05:35: #2 alternative fragment length(s) may be 124 bps INFO @ Sat, 03 Apr 2021 08:05:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.20_model.r INFO @ Sat, 03 Apr 2021 08:05:35: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:05:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:05:58: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:06:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:06:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:06:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7192192/SRX7192192.20_summits.bed INFO @ Sat, 03 Apr 2021 08:06:12: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3655 records, 4 fields): 7 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。