Job ID = 14170754 SRX = SRX9434491 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 23564415 spots for SRR12982889/SRR12982889.sra Written 23564415 spots for SRR12982889/SRR12982889.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171591 ("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: 01:22:50 23564415 reads; of these: 23564415 (100.00%) were paired; of these: 1731661 (7.35%) aligned concordantly 0 times 10203009 (43.30%) aligned concordantly exactly 1 time 11629745 (49.35%) aligned concordantly >1 times ---- 1731661 pairs aligned concordantly 0 times; of these: 315512 (18.22%) aligned discordantly 1 time ---- 1416149 pairs aligned 0 times concordantly or discordantly; of these: 2832298 mates make up the pairs; of these: 1198253 (42.31%) aligned 0 times 364731 (12.88%) aligned exactly 1 time 1269314 (44.82%) aligned >1 times 97.46% overall alignment rate Time searching: 01:22:50 Overall time: 01:22:50 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] 1549694 / 22132913 = 0.0700 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 09:57:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.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 09:57:54: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:57:54: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:58:01: 1000000 INFO @ Sat, 11 Dec 2021 09:58:07: 2000000 INFO @ Sat, 11 Dec 2021 09:58:13: 3000000 INFO @ Sat, 11 Dec 2021 09:58:19: 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 @ Sat, 11 Dec 2021 09:58:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.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 09:58:24: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:58:24: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:58:26: 5000000 INFO @ Sat, 11 Dec 2021 09:58:30: 1000000 INFO @ Sat, 11 Dec 2021 09:58:33: 6000000 INFO @ Sat, 11 Dec 2021 09:58:37: 2000000 INFO @ Sat, 11 Dec 2021 09:58:40: 7000000 INFO @ Sat, 11 Dec 2021 09:58:44: 3000000 INFO @ Sat, 11 Dec 2021 09:58:47: 8000000 INFO @ Sat, 11 Dec 2021 09:58:51: 4000000 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 09:58:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.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 09:58:54: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:58:54: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:58:54: 9000000 INFO @ Sat, 11 Dec 2021 09:58:59: 5000000 INFO @ Sat, 11 Dec 2021 09:59:01: 1000000 INFO @ Sat, 11 Dec 2021 09:59:02: 10000000 INFO @ Sat, 11 Dec 2021 09:59:07: 6000000 INFO @ Sat, 11 Dec 2021 09:59:08: 2000000 INFO @ Sat, 11 Dec 2021 09:59:09: 11000000 INFO @ Sat, 11 Dec 2021 09:59:14: 7000000 INFO @ Sat, 11 Dec 2021 09:59:15: 3000000 INFO @ Sat, 11 Dec 2021 09:59:16: 12000000 INFO @ Sat, 11 Dec 2021 09:59:21: 8000000 INFO @ Sat, 11 Dec 2021 09:59:22: 4000000 INFO @ Sat, 11 Dec 2021 09:59:24: 13000000 INFO @ Sat, 11 Dec 2021 09:59:28: 9000000 INFO @ Sat, 11 Dec 2021 09:59:30: 5000000 INFO @ Sat, 11 Dec 2021 09:59:31: 14000000 INFO @ Sat, 11 Dec 2021 09:59:35: 10000000 INFO @ Sat, 11 Dec 2021 09:59:37: 6000000 INFO @ Sat, 11 Dec 2021 09:59:39: 15000000 INFO @ Sat, 11 Dec 2021 09:59:42: 11000000 INFO @ Sat, 11 Dec 2021 09:59:44: 7000000 INFO @ Sat, 11 Dec 2021 09:59:46: 16000000 INFO @ Sat, 11 Dec 2021 09:59:50: 12000000 INFO @ Sat, 11 Dec 2021 09:59:51: 8000000 INFO @ Sat, 11 Dec 2021 09:59:53: 17000000 INFO @ Sat, 11 Dec 2021 09:59:57: 13000000 INFO @ Sat, 11 Dec 2021 09:59:59: 9000000 INFO @ Sat, 11 Dec 2021 10:00:00: 18000000 INFO @ Sat, 11 Dec 2021 10:00:04: 14000000 INFO @ Sat, 11 Dec 2021 10:00:06: 10000000 INFO @ Sat, 11 Dec 2021 10:00:08: 19000000 INFO @ Sat, 11 Dec 2021 10:00:12: 15000000 INFO @ Sat, 11 Dec 2021 10:00:14: 11000000 INFO @ Sat, 11 Dec 2021 10:00:15: 20000000 INFO @ Sat, 11 Dec 2021 10:00:19: 16000000 INFO @ Sat, 11 Dec 2021 10:00:21: 12000000 INFO @ Sat, 11 Dec 2021 10:00:23: 21000000 INFO @ Sat, 11 Dec 2021 10:00:26: 17000000 INFO @ Sat, 11 Dec 2021 10:00:29: 13000000 INFO @ Sat, 11 Dec 2021 10:00:30: 22000000 INFO @ Sat, 11 Dec 2021 10:00:34: 18000000 INFO @ Sat, 11 Dec 2021 10:00:36: 14000000 INFO @ Sat, 11 Dec 2021 10:00:38: 23000000 INFO @ Sat, 11 Dec 2021 10:00:41: 19000000 INFO @ Sat, 11 Dec 2021 10:00:44: 15000000 INFO @ Sat, 11 Dec 2021 10:00:45: 24000000 INFO @ Sat, 11 Dec 2021 10:00:48: 20000000 INFO @ Sat, 11 Dec 2021 10:00:51: 16000000 INFO @ Sat, 11 Dec 2021 10:00:53: 25000000 INFO @ Sat, 11 Dec 2021 10:00:55: 21000000 INFO @ Sat, 11 Dec 2021 10:00:59: 17000000 INFO @ Sat, 11 Dec 2021 10:01:00: 26000000 INFO @ Sat, 11 Dec 2021 10:01:03: 22000000 INFO @ Sat, 11 Dec 2021 10:01:06: 18000000 INFO @ Sat, 11 Dec 2021 10:01:08: 27000000 INFO @ Sat, 11 Dec 2021 10:01:10: 23000000 INFO @ Sat, 11 Dec 2021 10:01:14: 19000000 INFO @ Sat, 11 Dec 2021 10:01:16: 28000000 INFO @ Sat, 11 Dec 2021 10:01:17: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 10:01:21: 20000000 INFO @ Sat, 11 Dec 2021 10:01:24: 29000000 INFO @ Sat, 11 Dec 2021 10:01:24: 25000000 INFO @ Sat, 11 Dec 2021 10:01:28: 21000000 INFO @ Sat, 11 Dec 2021 10:01:31: 30000000 INFO @ Sat, 11 Dec 2021 10:01:32: 26000000 INFO @ Sat, 11 Dec 2021 10:01:36: 22000000 INFO @ Sat, 11 Dec 2021 10:01:39: 31000000 INFO @ Sat, 11 Dec 2021 10:01:39: 27000000 INFO @ Sat, 11 Dec 2021 10:01:43: 23000000 INFO @ Sat, 11 Dec 2021 10:01:46: 32000000 INFO @ Sat, 11 Dec 2021 10:01:47: 28000000 INFO @ Sat, 11 Dec 2021 10:01:50: 24000000 INFO @ Sat, 11 Dec 2021 10:01:54: 33000000 INFO @ Sat, 11 Dec 2021 10:01:54: 29000000 INFO @ Sat, 11 Dec 2021 10:01:58: 25000000 INFO @ Sat, 11 Dec 2021 10:02:01: 34000000 INFO @ Sat, 11 Dec 2021 10:02:01: 30000000 INFO @ Sat, 11 Dec 2021 10:02:05: 26000000 INFO @ Sat, 11 Dec 2021 10:02:08: 35000000 INFO @ Sat, 11 Dec 2021 10:02:09: 31000000 INFO @ Sat, 11 Dec 2021 10:02:12: 27000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 10:02:15: 36000000 INFO @ Sat, 11 Dec 2021 10:02:16: 32000000 INFO @ Sat, 11 Dec 2021 10:02:19: 28000000 INFO @ Sat, 11 Dec 2021 10:02:23: 37000000 INFO @ Sat, 11 Dec 2021 10:02:23: 33000000 INFO @ Sat, 11 Dec 2021 10:02:26: 29000000 INFO @ Sat, 11 Dec 2021 10:02:30: 34000000 INFO @ Sat, 11 Dec 2021 10:02:30: 38000000 INFO @ Sat, 11 Dec 2021 10:02:34: 30000000 INFO @ Sat, 11 Dec 2021 10:02:37: 35000000 INFO @ Sat, 11 Dec 2021 10:02:37: 39000000 INFO @ Sat, 11 Dec 2021 10:02:41: 31000000 INFO @ Sat, 11 Dec 2021 10:02:44: 36000000 INFO @ Sat, 11 Dec 2021 10:02:44: 40000000 INFO @ Sat, 11 Dec 2021 10:02:48: 32000000 INFO @ Sat, 11 Dec 2021 10:02:51: 37000000 INFO @ Sat, 11 Dec 2021 10:02:52: 41000000 INFO @ Sat, 11 Dec 2021 10:02:55: 33000000 INFO @ Sat, 11 Dec 2021 10:02:58: 38000000 INFO @ Sat, 11 Dec 2021 10:02:59: 42000000 INFO @ Sat, 11 Dec 2021 10:03:02: 34000000 INFO @ Sat, 11 Dec 2021 10:03:05: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:03:05: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:03:05: #1 total tags in treatment: 20308757 INFO @ Sat, 11 Dec 2021 10:03:05: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:03:05: #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 10:03:05: #1 tags after filtering in treatment: 17193107 INFO @ Sat, 11 Dec 2021 10:03:05: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 11 Dec 2021 10:03:05: #1 finished! INFO @ Sat, 11 Dec 2021 10:03:05: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:03:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:03:06: 39000000 INFO @ Sat, 11 Dec 2021 10:03:07: #2 number of paired peaks: 3924 INFO @ Sat, 11 Dec 2021 10:03:07: start model_add_line... INFO @ Sat, 11 Dec 2021 10:03:07: start X-correlation... INFO @ Sat, 11 Dec 2021 10:03:07: end of X-cor INFO @ Sat, 11 Dec 2021 10:03:07: #2 finished! INFO @ Sat, 11 Dec 2021 10:03:07: #2 predicted fragment length is 190 bps INFO @ Sat, 11 Dec 2021 10:03:07: #2 alternative fragment length(s) may be 190 bps INFO @ Sat, 11 Dec 2021 10:03:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.05_model.r INFO @ Sat, 11 Dec 2021 10:03:07: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:03:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:03:09: 35000000 INFO @ Sat, 11 Dec 2021 10:03:13: 40000000 INFO @ Sat, 11 Dec 2021 10:03:16: 36000000 INFO @ Sat, 11 Dec 2021 10:03:20: 41000000 INFO @ Sat, 11 Dec 2021 10:03:23: 37000000 INFO @ Sat, 11 Dec 2021 10:03:27: 42000000 INFO @ Sat, 11 Dec 2021 10:03:30: 38000000 INFO @ Sat, 11 Dec 2021 10:03:33: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:03:33: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:03:33: #1 total tags in treatment: 20308757 INFO @ Sat, 11 Dec 2021 10:03:33: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:03:33: #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 10:03:33: #1 tags after filtering in treatment: 17193107 INFO @ Sat, 11 Dec 2021 10:03:33: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 11 Dec 2021 10:03:33: #1 finished! INFO @ Sat, 11 Dec 2021 10:03:33: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:03:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:03:35: #2 number of paired peaks: 3924 INFO @ Sat, 11 Dec 2021 10:03:35: start model_add_line... INFO @ Sat, 11 Dec 2021 10:03:35: start X-correlation... INFO @ Sat, 11 Dec 2021 10:03:35: end of X-cor INFO @ Sat, 11 Dec 2021 10:03:35: #2 finished! INFO @ Sat, 11 Dec 2021 10:03:35: #2 predicted fragment length is 190 bps INFO @ Sat, 11 Dec 2021 10:03:35: #2 alternative fragment length(s) may be 190 bps INFO @ Sat, 11 Dec 2021 10:03:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.10_model.r INFO @ Sat, 11 Dec 2021 10:03:35: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:03:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:03:37: 39000000 INFO @ Sat, 11 Dec 2021 10:03:43: 40000000 INFO @ Sat, 11 Dec 2021 10:03:49: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:03:50: 41000000 INFO @ Sat, 11 Dec 2021 10:03:56: 42000000 INFO @ Sat, 11 Dec 2021 10:04:01: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:04:01: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:04:01: #1 total tags in treatment: 20308757 INFO @ Sat, 11 Dec 2021 10:04:01: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:04:01: #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 10:04:02: #1 tags after filtering in treatment: 17193107 INFO @ Sat, 11 Dec 2021 10:04:02: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 11 Dec 2021 10:04:02: #1 finished! INFO @ Sat, 11 Dec 2021 10:04:02: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:04:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:04:03: #2 number of paired peaks: 3924 INFO @ Sat, 11 Dec 2021 10:04:03: start model_add_line... INFO @ Sat, 11 Dec 2021 10:04:03: start X-correlation... INFO @ Sat, 11 Dec 2021 10:04:03: end of X-cor INFO @ Sat, 11 Dec 2021 10:04:03: #2 finished! INFO @ Sat, 11 Dec 2021 10:04:03: #2 predicted fragment length is 190 bps INFO @ Sat, 11 Dec 2021 10:04:03: #2 alternative fragment length(s) may be 190 bps INFO @ Sat, 11 Dec 2021 10:04:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.20_model.r INFO @ Sat, 11 Dec 2021 10:04:03: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:04:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:04:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.05_peaks.xls INFO @ Sat, 11 Dec 2021 10:04:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:04:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.05_summits.bed INFO @ Sat, 11 Dec 2021 10:04:09: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (17599 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:04:16: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:04:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.10_peaks.xls INFO @ Sat, 11 Dec 2021 10:04:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:04:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.10_summits.bed INFO @ Sat, 11 Dec 2021 10:04:35: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (11601 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:04:45: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:05:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.20_peaks.xls INFO @ Sat, 11 Dec 2021 10:05:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:05:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434491/SRX9434491.20_summits.bed INFO @ Sat, 11 Dec 2021 10:05:05: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6174 records, 4 fields): 9 millis CompletedMACS2peakCalling