Job ID = 6527762 SRX = SRX2659843 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T13:25:08 prefetch.2.10.7: 1) Downloading 'SRR5364416'... 2020-06-29T13:25:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:40:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:40:45 prefetch.2.10.7: 1) 'SRR5364416' was downloaded successfully 2020-06-29T13:40:45 prefetch.2.10.7: 'SRR5364416' has 0 unresolved dependencies Read 43462621 spots for SRR5364416/SRR5364416.sra Written 43462621 spots for SRR5364416/SRR5364416.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:05:58 43462621 reads; of these: 43462621 (100.00%) were paired; of these: 16491673 (37.94%) aligned concordantly 0 times 20923382 (48.14%) aligned concordantly exactly 1 time 6047566 (13.91%) aligned concordantly >1 times ---- 16491673 pairs aligned concordantly 0 times; of these: 1745963 (10.59%) aligned discordantly 1 time ---- 14745710 pairs aligned 0 times concordantly or discordantly; of these: 29491420 mates make up the pairs; of these: 26506172 (89.88%) aligned 0 times 1597165 (5.42%) aligned exactly 1 time 1388083 (4.71%) aligned >1 times 69.51% overall alignment rate Time searching: 01:05:58 Overall time: 01:05:58 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 28 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] 4794576 / 28220225 = 0.1699 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 00:39:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.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 @ Tue, 30 Jun 2020 00:39:37: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:39:37: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:39:44: 1000000 INFO @ Tue, 30 Jun 2020 00:39:51: 2000000 INFO @ Tue, 30 Jun 2020 00:39:58: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 00:40:05: 4000000 INFO @ Tue, 30 Jun 2020 00:40:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.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 @ Tue, 30 Jun 2020 00:40:07: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:40:07: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:40:13: 5000000 INFO @ Tue, 30 Jun 2020 00:40:14: 1000000 INFO @ Tue, 30 Jun 2020 00:40:21: 6000000 INFO @ Tue, 30 Jun 2020 00:40:22: 2000000 INFO @ Tue, 30 Jun 2020 00:40:28: 7000000 INFO @ Tue, 30 Jun 2020 00:40:29: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 00:40:36: 8000000 INFO @ Tue, 30 Jun 2020 00:40:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.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 @ Tue, 30 Jun 2020 00:40:37: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:40:37: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:40:37: 4000000 INFO @ Tue, 30 Jun 2020 00:40:44: 9000000 INFO @ Tue, 30 Jun 2020 00:40:44: 5000000 INFO @ Tue, 30 Jun 2020 00:40:44: 1000000 INFO @ Tue, 30 Jun 2020 00:40:52: 10000000 INFO @ Tue, 30 Jun 2020 00:40:52: 6000000 INFO @ Tue, 30 Jun 2020 00:40:52: 2000000 INFO @ Tue, 30 Jun 2020 00:40:59: 7000000 INFO @ Tue, 30 Jun 2020 00:41:00: 11000000 INFO @ Tue, 30 Jun 2020 00:41:00: 3000000 INFO @ Tue, 30 Jun 2020 00:41:07: 8000000 INFO @ Tue, 30 Jun 2020 00:41:07: 12000000 INFO @ Tue, 30 Jun 2020 00:41:08: 4000000 INFO @ Tue, 30 Jun 2020 00:41:15: 9000000 INFO @ Tue, 30 Jun 2020 00:41:15: 13000000 INFO @ Tue, 30 Jun 2020 00:41:16: 5000000 INFO @ Tue, 30 Jun 2020 00:41:22: 10000000 INFO @ Tue, 30 Jun 2020 00:41:23: 14000000 INFO @ Tue, 30 Jun 2020 00:41:24: 6000000 INFO @ Tue, 30 Jun 2020 00:41:30: 11000000 INFO @ Tue, 30 Jun 2020 00:41:31: 15000000 INFO @ Tue, 30 Jun 2020 00:41:31: 7000000 INFO @ Tue, 30 Jun 2020 00:41:37: 12000000 INFO @ Tue, 30 Jun 2020 00:41:39: 16000000 INFO @ Tue, 30 Jun 2020 00:41:39: 8000000 INFO @ Tue, 30 Jun 2020 00:41:45: 13000000 INFO @ Tue, 30 Jun 2020 00:41:47: 17000000 INFO @ Tue, 30 Jun 2020 00:41:47: 9000000 INFO @ Tue, 30 Jun 2020 00:41:53: 14000000 INFO @ Tue, 30 Jun 2020 00:41:55: 18000000 INFO @ Tue, 30 Jun 2020 00:41:55: 10000000 INFO @ Tue, 30 Jun 2020 00:42:00: 15000000 INFO @ Tue, 30 Jun 2020 00:42:03: 11000000 INFO @ Tue, 30 Jun 2020 00:42:03: 19000000 INFO @ Tue, 30 Jun 2020 00:42:08: 16000000 INFO @ Tue, 30 Jun 2020 00:42:10: 12000000 INFO @ Tue, 30 Jun 2020 00:42:10: 20000000 INFO @ Tue, 30 Jun 2020 00:42:15: 17000000 INFO @ Tue, 30 Jun 2020 00:42:18: 21000000 INFO @ Tue, 30 Jun 2020 00:42:18: 13000000 INFO @ Tue, 30 Jun 2020 00:42:23: 18000000 INFO @ Tue, 30 Jun 2020 00:42:26: 22000000 INFO @ Tue, 30 Jun 2020 00:42:26: 14000000 INFO @ Tue, 30 Jun 2020 00:42:31: 19000000 INFO @ Tue, 30 Jun 2020 00:42:34: 23000000 INFO @ Tue, 30 Jun 2020 00:42:34: 15000000 INFO @ Tue, 30 Jun 2020 00:42:38: 20000000 INFO @ Tue, 30 Jun 2020 00:42:42: 24000000 INFO @ Tue, 30 Jun 2020 00:42:42: 16000000 INFO @ Tue, 30 Jun 2020 00:42:46: 21000000 INFO @ Tue, 30 Jun 2020 00:42:50: 25000000 INFO @ Tue, 30 Jun 2020 00:42:50: 17000000 INFO @ Tue, 30 Jun 2020 00:42:53: 22000000 INFO @ Tue, 30 Jun 2020 00:42:57: 26000000 INFO @ Tue, 30 Jun 2020 00:42:58: 18000000 INFO @ Tue, 30 Jun 2020 00:43:01: 23000000 INFO @ Tue, 30 Jun 2020 00:43:05: 27000000 INFO @ Tue, 30 Jun 2020 00:43:06: 19000000 INFO @ Tue, 30 Jun 2020 00:43:08: 24000000 INFO @ Tue, 30 Jun 2020 00:43:13: 28000000 INFO @ Tue, 30 Jun 2020 00:43:13: 20000000 INFO @ Tue, 30 Jun 2020 00:43:16: 25000000 INFO @ Tue, 30 Jun 2020 00:43:20: 29000000 INFO @ Tue, 30 Jun 2020 00:43:21: 21000000 INFO @ Tue, 30 Jun 2020 00:43:23: 26000000 INFO @ Tue, 30 Jun 2020 00:43:28: 30000000 INFO @ Tue, 30 Jun 2020 00:43:29: 22000000 INFO @ Tue, 30 Jun 2020 00:43:30: 27000000 INFO @ Tue, 30 Jun 2020 00:43:37: 31000000 INFO @ Tue, 30 Jun 2020 00:43:37: 23000000 INFO @ Tue, 30 Jun 2020 00:43:38: 28000000 INFO @ Tue, 30 Jun 2020 00:43:44: 24000000 INFO @ Tue, 30 Jun 2020 00:43:45: 32000000 INFO @ Tue, 30 Jun 2020 00:43:45: 29000000 INFO @ Tue, 30 Jun 2020 00:43:52: 25000000 INFO @ Tue, 30 Jun 2020 00:43:53: 30000000 INFO @ Tue, 30 Jun 2020 00:43:53: 33000000 INFO @ Tue, 30 Jun 2020 00:44:00: 26000000 INFO @ Tue, 30 Jun 2020 00:44:00: 31000000 INFO @ Tue, 30 Jun 2020 00:44:01: 34000000 INFO @ Tue, 30 Jun 2020 00:44:08: 32000000 INFO @ Tue, 30 Jun 2020 00:44:08: 27000000 INFO @ Tue, 30 Jun 2020 00:44:09: 35000000 INFO @ Tue, 30 Jun 2020 00:44:15: 33000000 INFO @ Tue, 30 Jun 2020 00:44:15: 28000000 INFO @ Tue, 30 Jun 2020 00:44:17: 36000000 INFO @ Tue, 30 Jun 2020 00:44:22: 34000000 INFO @ Tue, 30 Jun 2020 00:44:23: 29000000 INFO @ Tue, 30 Jun 2020 00:44:25: 37000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:44:30: 35000000 INFO @ Tue, 30 Jun 2020 00:44:31: 30000000 INFO @ Tue, 30 Jun 2020 00:44:33: 38000000 INFO @ Tue, 30 Jun 2020 00:44:37: 36000000 INFO @ Tue, 30 Jun 2020 00:44:39: 31000000 INFO @ Tue, 30 Jun 2020 00:44:41: 39000000 INFO @ Tue, 30 Jun 2020 00:44:45: 37000000 INFO @ Tue, 30 Jun 2020 00:44:47: 32000000 INFO @ Tue, 30 Jun 2020 00:44:50: 40000000 INFO @ Tue, 30 Jun 2020 00:44:52: 38000000 INFO @ Tue, 30 Jun 2020 00:44:54: 33000000 INFO @ Tue, 30 Jun 2020 00:44:58: 41000000 INFO @ Tue, 30 Jun 2020 00:45:00: 39000000 INFO @ Tue, 30 Jun 2020 00:45:02: 34000000 INFO @ Tue, 30 Jun 2020 00:45:06: 42000000 INFO @ Tue, 30 Jun 2020 00:45:08: 40000000 INFO @ Tue, 30 Jun 2020 00:45:10: 35000000 INFO @ Tue, 30 Jun 2020 00:45:14: 43000000 INFO @ Tue, 30 Jun 2020 00:45:15: 41000000 INFO @ Tue, 30 Jun 2020 00:45:18: 36000000 INFO @ Tue, 30 Jun 2020 00:45:22: 44000000 INFO @ Tue, 30 Jun 2020 00:45:23: 42000000 INFO @ Tue, 30 Jun 2020 00:45:25: 37000000 INFO @ Tue, 30 Jun 2020 00:45:30: 45000000 INFO @ Tue, 30 Jun 2020 00:45:30: 43000000 INFO @ Tue, 30 Jun 2020 00:45:33: 38000000 INFO @ Tue, 30 Jun 2020 00:45:38: 44000000 INFO @ Tue, 30 Jun 2020 00:45:38: 46000000 INFO @ Tue, 30 Jun 2020 00:45:41: 39000000 INFO @ Tue, 30 Jun 2020 00:45:45: 45000000 INFO @ Tue, 30 Jun 2020 00:45:46: 47000000 INFO @ Tue, 30 Jun 2020 00:45:49: 40000000 INFO @ Tue, 30 Jun 2020 00:45:53: 46000000 INFO @ Tue, 30 Jun 2020 00:45:54: 48000000 INFO @ Tue, 30 Jun 2020 00:45:57: 41000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:46:01: 47000000 INFO @ Tue, 30 Jun 2020 00:46:02: 49000000 INFO @ Tue, 30 Jun 2020 00:46:05: 42000000 INFO @ Tue, 30 Jun 2020 00:46:08: 48000000 INFO @ Tue, 30 Jun 2020 00:46:10: 50000000 INFO @ Tue, 30 Jun 2020 00:46:13: 43000000 INFO @ Tue, 30 Jun 2020 00:46:16: 49000000 INFO @ Tue, 30 Jun 2020 00:46:16: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:46:16: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:46:16: #1 total tags in treatment: 22484344 INFO @ Tue, 30 Jun 2020 00:46:16: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:46:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:46:17: #1 tags after filtering in treatment: 20684994 INFO @ Tue, 30 Jun 2020 00:46:17: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 30 Jun 2020 00:46:17: #1 finished! INFO @ Tue, 30 Jun 2020 00:46:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:46:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:46:18: #2 number of paired peaks: 88 WARNING @ Tue, 30 Jun 2020 00:46:18: Too few paired peaks (88) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:46:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:46:21: 44000000 INFO @ Tue, 30 Jun 2020 00:46:23: 50000000 INFO @ Tue, 30 Jun 2020 00:46:28: 45000000 INFO @ Tue, 30 Jun 2020 00:46:30: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:46:30: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:46:30: #1 total tags in treatment: 22484344 INFO @ Tue, 30 Jun 2020 00:46:30: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:46:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:46:30: #1 tags after filtering in treatment: 20684994 INFO @ Tue, 30 Jun 2020 00:46:30: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 30 Jun 2020 00:46:30: #1 finished! INFO @ Tue, 30 Jun 2020 00:46:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:46:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:46:31: #2 number of paired peaks: 88 WARNING @ Tue, 30 Jun 2020 00:46:31: Too few paired peaks (88) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:46:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:46:36: 46000000 INFO @ Tue, 30 Jun 2020 00:46:43: 47000000 INFO @ Tue, 30 Jun 2020 00:46:50: 48000000 INFO @ Tue, 30 Jun 2020 00:46:58: 49000000 INFO @ Tue, 30 Jun 2020 00:47:05: 50000000 INFO @ Tue, 30 Jun 2020 00:47:11: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:47:11: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:47:11: #1 total tags in treatment: 22484344 INFO @ Tue, 30 Jun 2020 00:47:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:47:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:47:11: #1 tags after filtering in treatment: 20684994 INFO @ Tue, 30 Jun 2020 00:47:11: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 30 Jun 2020 00:47:11: #1 finished! INFO @ Tue, 30 Jun 2020 00:47:11: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:47:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:47:13: #2 number of paired peaks: 88 WARNING @ Tue, 30 Jun 2020 00:47:13: Too few paired peaks (88) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:47:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2659843/SRX2659843.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling