Job ID = 14172131 SRX = SRX7628915 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16002362 spots for SRR10963277/SRR10963277.sra Written 16002362 spots for SRR10963277/SRR10963277.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172660 ("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: 00:23:17 16002362 reads; of these: 16002362 (100.00%) were paired; of these: 1038901 (6.49%) aligned concordantly 0 times 11422101 (71.38%) aligned concordantly exactly 1 time 3541360 (22.13%) aligned concordantly >1 times ---- 1038901 pairs aligned concordantly 0 times; of these: 54492 (5.25%) aligned discordantly 1 time ---- 984409 pairs aligned 0 times concordantly or discordantly; of these: 1968818 mates make up the pairs; of these: 1259733 (63.98%) aligned 0 times 426090 (21.64%) aligned exactly 1 time 282995 (14.37%) aligned >1 times 96.06% overall alignment rate Time searching: 00:23:17 Overall time: 00:23:17 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 12 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] 813662 / 15010982 = 0.0542 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 14:54:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.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 14:54:45: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:54:45: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:54:50: 1000000 INFO @ Sat, 11 Dec 2021 14:54:54: 2000000 INFO @ Sat, 11 Dec 2021 14:54:59: 3000000 INFO @ Sat, 11 Dec 2021 14:55:03: 4000000 INFO @ Sat, 11 Dec 2021 14:55:08: 5000000 INFO @ Sat, 11 Dec 2021 14:55:12: 6000000 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 14:55:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.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 14:55:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:55:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:55:17: 7000000 INFO @ Sat, 11 Dec 2021 14:55:20: 1000000 INFO @ Sat, 11 Dec 2021 14:55:22: 8000000 INFO @ Sat, 11 Dec 2021 14:55:25: 2000000 INFO @ Sat, 11 Dec 2021 14:55:26: 9000000 INFO @ Sat, 11 Dec 2021 14:55:30: 3000000 INFO @ Sat, 11 Dec 2021 14:55:31: 10000000 INFO @ Sat, 11 Dec 2021 14:55:35: 4000000 INFO @ Sat, 11 Dec 2021 14:55:36: 11000000 INFO @ Sat, 11 Dec 2021 14:55:40: 5000000 INFO @ Sat, 11 Dec 2021 14:55:41: 12000000 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 14:55:44: 6000000 INFO @ Sat, 11 Dec 2021 14:55:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.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 14:55:45: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:55:45: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:55:46: 13000000 INFO @ Sat, 11 Dec 2021 14:55:49: 7000000 INFO @ Sat, 11 Dec 2021 14:55:50: 1000000 INFO @ Sat, 11 Dec 2021 14:55:51: 14000000 INFO @ Sat, 11 Dec 2021 14:55:54: 8000000 INFO @ Sat, 11 Dec 2021 14:55:55: 2000000 INFO @ Sat, 11 Dec 2021 14:55:56: 15000000 INFO @ Sat, 11 Dec 2021 14:55:59: 9000000 INFO @ Sat, 11 Dec 2021 14:56:00: 3000000 INFO @ Sat, 11 Dec 2021 14:56:01: 16000000 INFO @ Sat, 11 Dec 2021 14:56:04: 10000000 INFO @ Sat, 11 Dec 2021 14:56:05: 4000000 INFO @ Sat, 11 Dec 2021 14:56:06: 17000000 INFO @ Sat, 11 Dec 2021 14:56:09: 11000000 INFO @ Sat, 11 Dec 2021 14:56:10: 5000000 INFO @ Sat, 11 Dec 2021 14:56:11: 18000000 INFO @ Sat, 11 Dec 2021 14:56:14: 12000000 INFO @ Sat, 11 Dec 2021 14:56:15: 6000000 INFO @ Sat, 11 Dec 2021 14:56:16: 19000000 INFO @ Sat, 11 Dec 2021 14:56:19: 13000000 INFO @ Sat, 11 Dec 2021 14:56:20: 7000000 INFO @ Sat, 11 Dec 2021 14:56:21: 20000000 INFO @ Sat, 11 Dec 2021 14:56:24: 14000000 INFO @ Sat, 11 Dec 2021 14:56:25: 8000000 INFO @ Sat, 11 Dec 2021 14:56:25: 21000000 INFO @ Sat, 11 Dec 2021 14:56:29: 15000000 INFO @ Sat, 11 Dec 2021 14:56:30: 9000000 INFO @ Sat, 11 Dec 2021 14:56:30: 22000000 INFO @ Sat, 11 Dec 2021 14:56:34: 16000000 INFO @ Sat, 11 Dec 2021 14:56:35: 10000000 INFO @ Sat, 11 Dec 2021 14:56:35: 23000000 INFO @ Sat, 11 Dec 2021 14:56:39: 17000000 INFO @ Sat, 11 Dec 2021 14:56:40: 11000000 INFO @ Sat, 11 Dec 2021 14:56:40: 24000000 INFO @ Sat, 11 Dec 2021 14:56:44: 18000000 INFO @ Sat, 11 Dec 2021 14:56:45: 12000000 INFO @ Sat, 11 Dec 2021 14:56:45: 25000000 INFO @ Sat, 11 Dec 2021 14:56:49: 19000000 INFO @ Sat, 11 Dec 2021 14:56:50: 13000000 INFO @ Sat, 11 Dec 2021 14:56:50: 26000000 INFO @ Sat, 11 Dec 2021 14:56:54: 20000000 INFO @ Sat, 11 Dec 2021 14:56:55: 14000000 INFO @ Sat, 11 Dec 2021 14:56:55: 27000000 INFO @ Sat, 11 Dec 2021 14:56:59: 21000000 INFO @ Sat, 11 Dec 2021 14:57:00: 15000000 INFO @ Sat, 11 Dec 2021 14:57:00: 28000000 INFO @ Sat, 11 Dec 2021 14:57:04: 22000000 INFO @ Sat, 11 Dec 2021 14:57:05: 16000000 INFO @ Sat, 11 Dec 2021 14:57:05: 29000000 INFO @ Sat, 11 Dec 2021 14:57:06: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:57:06: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:57:06: #1 total tags in treatment: 14150991 INFO @ Sat, 11 Dec 2021 14:57:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:57:06: #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 14:57:06: #1 tags after filtering in treatment: 13110223 INFO @ Sat, 11 Dec 2021 14:57:06: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 14:57:06: #1 finished! INFO @ Sat, 11 Dec 2021 14:57:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:57:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:57:07: #2 number of paired peaks: 1616 INFO @ Sat, 11 Dec 2021 14:57:07: start model_add_line... INFO @ Sat, 11 Dec 2021 14:57:07: start X-correlation... INFO @ Sat, 11 Dec 2021 14:57:07: end of X-cor INFO @ Sat, 11 Dec 2021 14:57:07: #2 finished! INFO @ Sat, 11 Dec 2021 14:57:07: #2 predicted fragment length is 170 bps INFO @ Sat, 11 Dec 2021 14:57:07: #2 alternative fragment length(s) may be 4,170 bps INFO @ Sat, 11 Dec 2021 14:57:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.05_model.r INFO @ Sat, 11 Dec 2021 14:57:07: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:57:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:57:09: 23000000 INFO @ Sat, 11 Dec 2021 14:57:10: 17000000 INFO @ Sat, 11 Dec 2021 14:57:14: 24000000 INFO @ Sat, 11 Dec 2021 14:57:15: 18000000 INFO @ Sat, 11 Dec 2021 14:57:19: 25000000 INFO @ Sat, 11 Dec 2021 14:57:20: 19000000 INFO @ Sat, 11 Dec 2021 14:57:24: 26000000 INFO @ Sat, 11 Dec 2021 14:57:25: 20000000 INFO @ Sat, 11 Dec 2021 14:57:29: 27000000 INFO @ Sat, 11 Dec 2021 14:57:30: 21000000 INFO @ Sat, 11 Dec 2021 14:57:34: 28000000 INFO @ Sat, 11 Dec 2021 14:57:35: 22000000 INFO @ Sat, 11 Dec 2021 14:57:36: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:57:39: 29000000 INFO @ Sat, 11 Dec 2021 14:57:40: 23000000 INFO @ Sat, 11 Dec 2021 14:57:40: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:57:40: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:57:40: #1 total tags in treatment: 14150991 INFO @ Sat, 11 Dec 2021 14:57:40: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:57:40: #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 14:57:40: #1 tags after filtering in treatment: 13110223 INFO @ Sat, 11 Dec 2021 14:57:40: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 14:57:40: #1 finished! INFO @ Sat, 11 Dec 2021 14:57:40: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:57:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:57:41: #2 number of paired peaks: 1616 INFO @ Sat, 11 Dec 2021 14:57:41: start model_add_line... INFO @ Sat, 11 Dec 2021 14:57:41: start X-correlation... INFO @ Sat, 11 Dec 2021 14:57:41: end of X-cor INFO @ Sat, 11 Dec 2021 14:57:41: #2 finished! INFO @ Sat, 11 Dec 2021 14:57:41: #2 predicted fragment length is 170 bps INFO @ Sat, 11 Dec 2021 14:57:41: #2 alternative fragment length(s) may be 4,170 bps INFO @ Sat, 11 Dec 2021 14:57:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.10_model.r INFO @ Sat, 11 Dec 2021 14:57:41: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:57:41: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:57:44: 24000000 INFO @ Sat, 11 Dec 2021 14:57:49: 25000000 INFO @ Sat, 11 Dec 2021 14:57:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.05_peaks.xls INFO @ Sat, 11 Dec 2021 14:57:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:57:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.05_summits.bed INFO @ Sat, 11 Dec 2021 14:57:49: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2872 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:57:54: 26000000 INFO @ Sat, 11 Dec 2021 14:57:59: 27000000 INFO @ Sat, 11 Dec 2021 14:58:03: 28000000 INFO @ Sat, 11 Dec 2021 14:58:08: 29000000 INFO @ Sat, 11 Dec 2021 14:58:08: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:58:08: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:58:08: #1 total tags in treatment: 14150991 INFO @ Sat, 11 Dec 2021 14:58:08: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:58:08: #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 14:58:09: #1 tags after filtering in treatment: 13110223 INFO @ Sat, 11 Dec 2021 14:58:09: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 14:58:09: #1 finished! INFO @ Sat, 11 Dec 2021 14:58:09: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:58:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:58:10: #2 number of paired peaks: 1616 INFO @ Sat, 11 Dec 2021 14:58:10: start model_add_line... INFO @ Sat, 11 Dec 2021 14:58:10: start X-correlation... INFO @ Sat, 11 Dec 2021 14:58:10: end of X-cor INFO @ Sat, 11 Dec 2021 14:58:10: #2 finished! INFO @ Sat, 11 Dec 2021 14:58:10: #2 predicted fragment length is 170 bps INFO @ Sat, 11 Dec 2021 14:58:10: #2 alternative fragment length(s) may be 4,170 bps INFO @ Sat, 11 Dec 2021 14:58:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.20_model.r INFO @ Sat, 11 Dec 2021 14:58:10: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:58:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:58:10: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:58:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.10_peaks.xls INFO @ Sat, 11 Dec 2021 14:58:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:58:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.10_summits.bed INFO @ Sat, 11 Dec 2021 14:58:24: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1635 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:58:40: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 14:58:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.20_peaks.xls INFO @ Sat, 11 Dec 2021 14:58:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:58:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628915/SRX7628915.20_summits.bed INFO @ Sat, 11 Dec 2021 14:58:53: Done! pass1 - making usageList (14 chroms): 0 millis pass2 - checking and writing primary data (948 records, 4 fields): 3 millis CompletedMACS2peakCalling