Job ID = 14168146 SRX = SRX7175247 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 21199828 spots for SRR10485687/SRR10485687.sra Written 21199828 spots for SRR10485687/SRR10485687.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169043 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:34:18 21199828 reads; of these: 21199828 (100.00%) were paired; of these: 2149231 (10.14%) aligned concordantly 0 times 15968960 (75.33%) aligned concordantly exactly 1 time 3081637 (14.54%) aligned concordantly >1 times ---- 2149231 pairs aligned concordantly 0 times; of these: 188529 (8.77%) aligned discordantly 1 time ---- 1960702 pairs aligned 0 times concordantly or discordantly; of these: 3921404 mates make up the pairs; of these: 3160152 (80.59%) aligned 0 times 477199 (12.17%) aligned exactly 1 time 284053 (7.24%) aligned >1 times 92.55% overall alignment rate Time searching: 00:34:19 Overall time: 00:34:19 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] 2518100 / 19179730 = 0.1313 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 16:28:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.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 16:28:30: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:28:30: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:28:37: 1000000 INFO @ Fri, 10 Dec 2021 16:28:44: 2000000 INFO @ Fri, 10 Dec 2021 16:28:51: 3000000 INFO @ Fri, 10 Dec 2021 16:28:58: 4000000 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 16:29:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.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 16:29:00: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:29:00: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:29:06: 5000000 INFO @ Fri, 10 Dec 2021 16:29:08: 1000000 INFO @ Fri, 10 Dec 2021 16:29:13: 6000000 INFO @ Fri, 10 Dec 2021 16:29:15: 2000000 INFO @ Fri, 10 Dec 2021 16:29:21: 7000000 INFO @ Fri, 10 Dec 2021 16:29:23: 3000000 INFO @ Fri, 10 Dec 2021 16:29:28: 8000000 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 16:29:30: 4000000 INFO @ Fri, 10 Dec 2021 16:29:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.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 16:29:30: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:29:30: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:29:36: 9000000 INFO @ Fri, 10 Dec 2021 16:29:38: 5000000 INFO @ Fri, 10 Dec 2021 16:29:38: 1000000 INFO @ Fri, 10 Dec 2021 16:29:44: 10000000 INFO @ Fri, 10 Dec 2021 16:29:45: 6000000 INFO @ Fri, 10 Dec 2021 16:29:47: 2000000 INFO @ Fri, 10 Dec 2021 16:29:52: 11000000 INFO @ Fri, 10 Dec 2021 16:29:53: 7000000 INFO @ Fri, 10 Dec 2021 16:29:55: 3000000 INFO @ Fri, 10 Dec 2021 16:30:00: 12000000 INFO @ Fri, 10 Dec 2021 16:30:01: 8000000 INFO @ Fri, 10 Dec 2021 16:30:03: 4000000 INFO @ Fri, 10 Dec 2021 16:30:08: 13000000 INFO @ Fri, 10 Dec 2021 16:30:08: 9000000 INFO @ Fri, 10 Dec 2021 16:30:11: 5000000 INFO @ Fri, 10 Dec 2021 16:30:15: 14000000 INFO @ Fri, 10 Dec 2021 16:30:16: 10000000 INFO @ Fri, 10 Dec 2021 16:30:19: 6000000 INFO @ Fri, 10 Dec 2021 16:30:23: 15000000 INFO @ Fri, 10 Dec 2021 16:30:23: 11000000 INFO @ Fri, 10 Dec 2021 16:30:27: 7000000 INFO @ Fri, 10 Dec 2021 16:30:31: 16000000 INFO @ Fri, 10 Dec 2021 16:30:31: 12000000 INFO @ Fri, 10 Dec 2021 16:30:35: 8000000 INFO @ Fri, 10 Dec 2021 16:30:39: 13000000 INFO @ Fri, 10 Dec 2021 16:30:39: 17000000 INFO @ Fri, 10 Dec 2021 16:30:43: 9000000 INFO @ Fri, 10 Dec 2021 16:30:46: 14000000 INFO @ Fri, 10 Dec 2021 16:30:46: 18000000 INFO @ Fri, 10 Dec 2021 16:30:51: 10000000 INFO @ Fri, 10 Dec 2021 16:30:54: 19000000 INFO @ Fri, 10 Dec 2021 16:30:54: 15000000 INFO @ Fri, 10 Dec 2021 16:30:59: 11000000 INFO @ Fri, 10 Dec 2021 16:31:02: 20000000 INFO @ Fri, 10 Dec 2021 16:31:02: 16000000 INFO @ Fri, 10 Dec 2021 16:31:07: 12000000 INFO @ Fri, 10 Dec 2021 16:31:10: 21000000 INFO @ Fri, 10 Dec 2021 16:31:10: 17000000 INFO @ Fri, 10 Dec 2021 16:31:16: 13000000 INFO @ Fri, 10 Dec 2021 16:31:17: 22000000 INFO @ Fri, 10 Dec 2021 16:31:17: 18000000 INFO @ Fri, 10 Dec 2021 16:31:24: 14000000 INFO @ Fri, 10 Dec 2021 16:31:25: 19000000 INFO @ Fri, 10 Dec 2021 16:31:25: 23000000 INFO @ Fri, 10 Dec 2021 16:31:32: 15000000 INFO @ Fri, 10 Dec 2021 16:31:33: 20000000 INFO @ Fri, 10 Dec 2021 16:31:33: 24000000 INFO @ Fri, 10 Dec 2021 16:31:40: 16000000 INFO @ Fri, 10 Dec 2021 16:31:41: 21000000 INFO @ Fri, 10 Dec 2021 16:31:41: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 16:31:48: 17000000 INFO @ Fri, 10 Dec 2021 16:31:49: 22000000 INFO @ Fri, 10 Dec 2021 16:31:49: 26000000 INFO @ Fri, 10 Dec 2021 16:31:56: 18000000 INFO @ Fri, 10 Dec 2021 16:31:57: 23000000 INFO @ Fri, 10 Dec 2021 16:31:57: 27000000 INFO @ Fri, 10 Dec 2021 16:32:04: 19000000 INFO @ Fri, 10 Dec 2021 16:32:05: 24000000 INFO @ Fri, 10 Dec 2021 16:32:05: 28000000 INFO @ Fri, 10 Dec 2021 16:32:12: 20000000 INFO @ Fri, 10 Dec 2021 16:32:13: 25000000 INFO @ Fri, 10 Dec 2021 16:32:13: 29000000 INFO @ Fri, 10 Dec 2021 16:32:20: 21000000 INFO @ Fri, 10 Dec 2021 16:32:21: 26000000 INFO @ Fri, 10 Dec 2021 16:32:21: 30000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 16:32:28: 22000000 INFO @ Fri, 10 Dec 2021 16:32:29: 31000000 INFO @ Fri, 10 Dec 2021 16:32:29: 27000000 INFO @ Fri, 10 Dec 2021 16:32:36: 23000000 INFO @ Fri, 10 Dec 2021 16:32:37: 32000000 INFO @ Fri, 10 Dec 2021 16:32:37: 28000000 INFO @ Fri, 10 Dec 2021 16:32:44: 24000000 INFO @ Fri, 10 Dec 2021 16:32:45: 33000000 INFO @ Fri, 10 Dec 2021 16:32:45: 29000000 INFO @ Fri, 10 Dec 2021 16:32:52: 25000000 INFO @ Fri, 10 Dec 2021 16:32:52: 34000000 INFO @ Fri, 10 Dec 2021 16:32:53: 30000000 INFO @ Fri, 10 Dec 2021 16:32:54: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:32:54: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:32:54: #1 total tags in treatment: 16540024 INFO @ Fri, 10 Dec 2021 16:32:54: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:32:54: #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 16:32:54: #1 tags after filtering in treatment: 12758204 INFO @ Fri, 10 Dec 2021 16:32:54: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 10 Dec 2021 16:32:54: #1 finished! INFO @ Fri, 10 Dec 2021 16:32:54: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:32:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:32:56: #2 number of paired peaks: 6253 INFO @ Fri, 10 Dec 2021 16:32:56: start model_add_line... INFO @ Fri, 10 Dec 2021 16:32:56: start X-correlation... INFO @ Fri, 10 Dec 2021 16:32:56: end of X-cor INFO @ Fri, 10 Dec 2021 16:32:56: #2 finished! INFO @ Fri, 10 Dec 2021 16:32:56: #2 predicted fragment length is 204 bps INFO @ Fri, 10 Dec 2021 16:32:56: #2 alternative fragment length(s) may be 204 bps INFO @ Fri, 10 Dec 2021 16:32:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.05_model.r INFO @ Fri, 10 Dec 2021 16:32:56: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:32:56: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:33:00: 26000000 INFO @ Fri, 10 Dec 2021 16:33:00: 31000000 INFO @ Fri, 10 Dec 2021 16:33:08: 27000000 INFO @ Fri, 10 Dec 2021 16:33:08: 32000000 INFO @ Fri, 10 Dec 2021 16:33:16: 33000000 INFO @ Fri, 10 Dec 2021 16:33:16: 28000000 INFO @ Fri, 10 Dec 2021 16:33:24: 34000000 INFO @ Fri, 10 Dec 2021 16:33:25: 29000000 INFO @ Fri, 10 Dec 2021 16:33:26: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:33:26: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:33:26: #1 total tags in treatment: 16540024 INFO @ Fri, 10 Dec 2021 16:33:26: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:33:26: #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 16:33:26: #1 tags after filtering in treatment: 12758204 INFO @ Fri, 10 Dec 2021 16:33:26: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 10 Dec 2021 16:33:26: #1 finished! INFO @ Fri, 10 Dec 2021 16:33:26: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:33:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:33:27: #2 number of paired peaks: 6253 INFO @ Fri, 10 Dec 2021 16:33:27: start model_add_line... INFO @ Fri, 10 Dec 2021 16:33:28: start X-correlation... INFO @ Fri, 10 Dec 2021 16:33:28: end of X-cor INFO @ Fri, 10 Dec 2021 16:33:28: #2 finished! INFO @ Fri, 10 Dec 2021 16:33:28: #2 predicted fragment length is 204 bps INFO @ Fri, 10 Dec 2021 16:33:28: #2 alternative fragment length(s) may be 204 bps INFO @ Fri, 10 Dec 2021 16:33:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.10_model.r INFO @ Fri, 10 Dec 2021 16:33:28: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:33:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:33:29: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:33:32: 30000000 INFO @ Fri, 10 Dec 2021 16:33:39: 31000000 INFO @ Fri, 10 Dec 2021 16:33:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.05_peaks.xls INFO @ Fri, 10 Dec 2021 16:33:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:33:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.05_summits.bed INFO @ Fri, 10 Dec 2021 16:33:43: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6179 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 16:33:46: 32000000 INFO @ Fri, 10 Dec 2021 16:33:54: 33000000 INFO @ Fri, 10 Dec 2021 16:34:01: 34000000 INFO @ Fri, 10 Dec 2021 16:34:01: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:34:02: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:34:02: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:34:02: #1 total tags in treatment: 16540024 INFO @ Fri, 10 Dec 2021 16:34:02: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:34:02: #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 16:34:03: #1 tags after filtering in treatment: 12758204 INFO @ Fri, 10 Dec 2021 16:34:03: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 10 Dec 2021 16:34:03: #1 finished! INFO @ Fri, 10 Dec 2021 16:34:03: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:34:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:34:04: #2 number of paired peaks: 6253 INFO @ Fri, 10 Dec 2021 16:34:04: start model_add_line... INFO @ Fri, 10 Dec 2021 16:34:04: start X-correlation... INFO @ Fri, 10 Dec 2021 16:34:04: end of X-cor INFO @ Fri, 10 Dec 2021 16:34:04: #2 finished! INFO @ Fri, 10 Dec 2021 16:34:04: #2 predicted fragment length is 204 bps INFO @ Fri, 10 Dec 2021 16:34:04: #2 alternative fragment length(s) may be 204 bps INFO @ Fri, 10 Dec 2021 16:34:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.20_model.r INFO @ Fri, 10 Dec 2021 16:34:04: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:34:04: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:34:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.10_peaks.xls INFO @ Fri, 10 Dec 2021 16:34:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:34:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.10_summits.bed INFO @ Fri, 10 Dec 2021 16:34:15: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5509 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 16:34:39: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:34:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.20_peaks.xls INFO @ Fri, 10 Dec 2021 16:34:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:34:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175247/SRX7175247.20_summits.bed INFO @ Fri, 10 Dec 2021 16:34:52: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4846 records, 4 fields): 7 millis CompletedMACS2peakCalling