Job ID = 14168220 SRX = SRX7175250 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18778524 spots for SRR10485690/SRR10485690.sra Written 18778524 spots for SRR10485690/SRR10485690.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169118 ("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: 00:29:56 18778524 reads; of these: 18778524 (100.00%) were paired; of these: 1214378 (6.47%) aligned concordantly 0 times 15053471 (80.16%) aligned concordantly exactly 1 time 2510675 (13.37%) aligned concordantly >1 times ---- 1214378 pairs aligned concordantly 0 times; of these: 208500 (17.17%) aligned discordantly 1 time ---- 1005878 pairs aligned 0 times concordantly or discordantly; of these: 2011756 mates make up the pairs; of these: 1343314 (66.77%) aligned 0 times 443409 (22.04%) aligned exactly 1 time 225033 (11.19%) aligned >1 times 96.42% overall alignment rate Time searching: 00:29:56 Overall time: 00:29:56 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] 329367 / 17725011 = 0.0186 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 @ Fri, 10 Dec 2021 16:53:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.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 @ Fri, 10 Dec 2021 16:53:50: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:53:50: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:53:57: 1000000 INFO @ Fri, 10 Dec 2021 16:54:04: 2000000 INFO @ Fri, 10 Dec 2021 16:54:11: 3000000 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 @ Fri, 10 Dec 2021 16:54:18: 4000000 INFO @ Fri, 10 Dec 2021 16:54:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.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 @ Fri, 10 Dec 2021 16:54:20: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:54:20: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:54:25: 5000000 INFO @ Fri, 10 Dec 2021 16:54:28: 1000000 INFO @ Fri, 10 Dec 2021 16:54:33: 6000000 INFO @ Fri, 10 Dec 2021 16:54:36: 2000000 INFO @ Fri, 10 Dec 2021 16:54:41: 7000000 INFO @ Fri, 10 Dec 2021 16:54:44: 3000000 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 @ Fri, 10 Dec 2021 16:54:49: 8000000 INFO @ Fri, 10 Dec 2021 16:54:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.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 @ Fri, 10 Dec 2021 16:54:50: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:54:50: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:54:53: 4000000 INFO @ Fri, 10 Dec 2021 16:54:58: 9000000 INFO @ Fri, 10 Dec 2021 16:54:58: 1000000 INFO @ Fri, 10 Dec 2021 16:55:01: 5000000 INFO @ Fri, 10 Dec 2021 16:55:06: 10000000 INFO @ Fri, 10 Dec 2021 16:55:06: 2000000 INFO @ Fri, 10 Dec 2021 16:55:09: 6000000 INFO @ Fri, 10 Dec 2021 16:55:14: 11000000 INFO @ Fri, 10 Dec 2021 16:55:15: 3000000 INFO @ Fri, 10 Dec 2021 16:55:17: 7000000 INFO @ Fri, 10 Dec 2021 16:55:22: 12000000 INFO @ Fri, 10 Dec 2021 16:55:23: 4000000 INFO @ Fri, 10 Dec 2021 16:55:25: 8000000 INFO @ Fri, 10 Dec 2021 16:55:30: 13000000 INFO @ Fri, 10 Dec 2021 16:55:31: 5000000 INFO @ Fri, 10 Dec 2021 16:55:33: 9000000 INFO @ Fri, 10 Dec 2021 16:55:38: 14000000 INFO @ Fri, 10 Dec 2021 16:55:39: 6000000 INFO @ Fri, 10 Dec 2021 16:55:41: 10000000 INFO @ Fri, 10 Dec 2021 16:55:46: 15000000 INFO @ Fri, 10 Dec 2021 16:55:47: 7000000 INFO @ Fri, 10 Dec 2021 16:55:49: 11000000 INFO @ Fri, 10 Dec 2021 16:55:55: 16000000 INFO @ Fri, 10 Dec 2021 16:55:55: 8000000 INFO @ Fri, 10 Dec 2021 16:55:57: 12000000 INFO @ Fri, 10 Dec 2021 16:56:03: 17000000 INFO @ Fri, 10 Dec 2021 16:56:03: 9000000 INFO @ Fri, 10 Dec 2021 16:56:05: 13000000 INFO @ Fri, 10 Dec 2021 16:56:11: 10000000 INFO @ Fri, 10 Dec 2021 16:56:12: 18000000 INFO @ Fri, 10 Dec 2021 16:56:13: 14000000 INFO @ Fri, 10 Dec 2021 16:56:19: 11000000 INFO @ Fri, 10 Dec 2021 16:56:20: 19000000 INFO @ Fri, 10 Dec 2021 16:56:21: 15000000 INFO @ Fri, 10 Dec 2021 16:56:27: 12000000 INFO @ Fri, 10 Dec 2021 16:56:28: 20000000 INFO @ Fri, 10 Dec 2021 16:56:29: 16000000 INFO @ Fri, 10 Dec 2021 16:56:35: 13000000 INFO @ Fri, 10 Dec 2021 16:56:36: 21000000 INFO @ Fri, 10 Dec 2021 16:56:37: 17000000 INFO @ Fri, 10 Dec 2021 16:56:43: 14000000 INFO @ Fri, 10 Dec 2021 16:56:44: 22000000 INFO @ Fri, 10 Dec 2021 16:56:45: 18000000 INFO @ Fri, 10 Dec 2021 16:56:51: 15000000 INFO @ Fri, 10 Dec 2021 16:56:52: 23000000 INFO @ Fri, 10 Dec 2021 16:56:53: 19000000 INFO @ Fri, 10 Dec 2021 16:56:59: 16000000 INFO @ Fri, 10 Dec 2021 16:57:00: 24000000 INFO @ Fri, 10 Dec 2021 16:57:01: 20000000 INFO @ Fri, 10 Dec 2021 16:57:07: 17000000 INFO @ Fri, 10 Dec 2021 16:57:08: 25000000 INFO @ Fri, 10 Dec 2021 16:57:09: 21000000 INFO @ Fri, 10 Dec 2021 16:57:15: 18000000 INFO @ Fri, 10 Dec 2021 16:57:17: 26000000 INFO @ Fri, 10 Dec 2021 16:57:17: 22000000 INFO @ Fri, 10 Dec 2021 16:57:23: 19000000 INFO @ Fri, 10 Dec 2021 16:57:25: 27000000 INFO @ Fri, 10 Dec 2021 16:57:26: 23000000 INFO @ Fri, 10 Dec 2021 16:57:31: 20000000 INFO @ Fri, 10 Dec 2021 16:57:33: 28000000 INFO @ Fri, 10 Dec 2021 16:57:34: 24000000 INFO @ Fri, 10 Dec 2021 16:57:39: 21000000 INFO @ Fri, 10 Dec 2021 16:57:41: 29000000 INFO @ Fri, 10 Dec 2021 16:57:42: 25000000 INFO @ Fri, 10 Dec 2021 16:57:47: 22000000 INFO @ Fri, 10 Dec 2021 16:57:50: 26000000 INFO @ Fri, 10 Dec 2021 16:57:50: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 16:57:55: 23000000 INFO @ Fri, 10 Dec 2021 16:57:58: 27000000 INFO @ Fri, 10 Dec 2021 16:57:58: 31000000 INFO @ Fri, 10 Dec 2021 16:58:04: 24000000 INFO @ Fri, 10 Dec 2021 16:58:06: 28000000 INFO @ Fri, 10 Dec 2021 16:58:07: 32000000 INFO @ Fri, 10 Dec 2021 16:58:12: 25000000 INFO @ Fri, 10 Dec 2021 16:58:15: 29000000 INFO @ Fri, 10 Dec 2021 16:58:16: 33000000 INFO @ Fri, 10 Dec 2021 16:58:20: 26000000 INFO @ Fri, 10 Dec 2021 16:58:23: 30000000 INFO @ Fri, 10 Dec 2021 16:58:24: 34000000 INFO @ Fri, 10 Dec 2021 16:58:29: 27000000 INFO @ Fri, 10 Dec 2021 16:58:32: 31000000 INFO @ Fri, 10 Dec 2021 16:58:32: 35000000 INFO @ Fri, 10 Dec 2021 16:58:37: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:58:37: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:58:37: #1 total tags in treatment: 17235865 INFO @ Fri, 10 Dec 2021 16:58:37: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:58:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 16:58:37: 28000000 INFO @ Fri, 10 Dec 2021 16:58:37: #1 tags after filtering in treatment: 15724253 INFO @ Fri, 10 Dec 2021 16:58:37: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 10 Dec 2021 16:58:37: #1 finished! INFO @ Fri, 10 Dec 2021 16:58:37: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:58:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:58:38: #2 number of paired peaks: 2294 INFO @ Fri, 10 Dec 2021 16:58:38: start model_add_line... INFO @ Fri, 10 Dec 2021 16:58:38: start X-correlation... INFO @ Fri, 10 Dec 2021 16:58:38: end of X-cor INFO @ Fri, 10 Dec 2021 16:58:38: #2 finished! INFO @ Fri, 10 Dec 2021 16:58:38: #2 predicted fragment length is 207 bps INFO @ Fri, 10 Dec 2021 16:58:38: #2 alternative fragment length(s) may be 207 bps INFO @ Fri, 10 Dec 2021 16:58:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.05_model.r INFO @ Fri, 10 Dec 2021 16:58:38: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:58:38: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:58:40: 32000000 INFO @ Fri, 10 Dec 2021 16:58:45: 29000000 INFO @ Fri, 10 Dec 2021 16:58:48: 33000000 INFO @ Fri, 10 Dec 2021 16:58:53: 30000000 INFO @ Fri, 10 Dec 2021 16:58:56: 34000000 INFO @ Fri, 10 Dec 2021 16:59:01: 31000000 INFO @ Fri, 10 Dec 2021 16:59:03: 35000000 INFO @ Fri, 10 Dec 2021 16:59:08: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:59:08: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:59:08: #1 total tags in treatment: 17235865 INFO @ Fri, 10 Dec 2021 16:59:08: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:59:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 16:59:08: #1 tags after filtering in treatment: 15724253 INFO @ Fri, 10 Dec 2021 16:59:08: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 10 Dec 2021 16:59:08: #1 finished! INFO @ Fri, 10 Dec 2021 16:59:08: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:59:08: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 16:59:08: 32000000 INFO @ Fri, 10 Dec 2021 16:59:09: #2 number of paired peaks: 2294 INFO @ Fri, 10 Dec 2021 16:59:09: start model_add_line... INFO @ Fri, 10 Dec 2021 16:59:10: start X-correlation... INFO @ Fri, 10 Dec 2021 16:59:10: end of X-cor INFO @ Fri, 10 Dec 2021 16:59:10: #2 finished! INFO @ Fri, 10 Dec 2021 16:59:10: #2 predicted fragment length is 207 bps INFO @ Fri, 10 Dec 2021 16:59:10: #2 alternative fragment length(s) may be 207 bps INFO @ Fri, 10 Dec 2021 16:59:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.10_model.r INFO @ Fri, 10 Dec 2021 16:59:10: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:59:10: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:59:15: 33000000 INFO @ Fri, 10 Dec 2021 16:59:18: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:59:22: 34000000 INFO @ Fri, 10 Dec 2021 16:59:29: 35000000 INFO @ Fri, 10 Dec 2021 16:59:32: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:59:32: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:59:32: #1 total tags in treatment: 17235865 INFO @ Fri, 10 Dec 2021 16:59:32: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:59:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 16:59:33: #1 tags after filtering in treatment: 15724253 INFO @ Fri, 10 Dec 2021 16:59:33: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 10 Dec 2021 16:59:33: #1 finished! INFO @ Fri, 10 Dec 2021 16:59:33: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:59:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:59:34: #2 number of paired peaks: 2294 INFO @ Fri, 10 Dec 2021 16:59:34: start model_add_line... INFO @ Fri, 10 Dec 2021 16:59:34: start X-correlation... INFO @ Fri, 10 Dec 2021 16:59:34: end of X-cor INFO @ Fri, 10 Dec 2021 16:59:34: #2 finished! INFO @ Fri, 10 Dec 2021 16:59:34: #2 predicted fragment length is 207 bps INFO @ Fri, 10 Dec 2021 16:59:34: #2 alternative fragment length(s) may be 207 bps INFO @ Fri, 10 Dec 2021 16:59:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.20_model.r INFO @ Fri, 10 Dec 2021 16:59:34: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:59:34: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:59:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.05_peaks.xls INFO @ Fri, 10 Dec 2021 16:59:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:59:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.05_summits.bed INFO @ Fri, 10 Dec 2021 16:59:38: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5760 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 16:59:50: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 17:00:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.10_peaks.xls INFO @ Fri, 10 Dec 2021 17:00:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 17:00:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.10_summits.bed INFO @ Fri, 10 Dec 2021 17:00:09: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5021 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 17:00:13: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 17:00:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.20_peaks.xls INFO @ Fri, 10 Dec 2021 17:00:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 17:00:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175250/SRX7175250.20_summits.bed INFO @ Fri, 10 Dec 2021 17:00:32: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4179 records, 4 fields): 6 millis CompletedMACS2peakCalling