Job ID = 6457923 SRX = SRX490729 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:00:47 prefetch.2.10.7: 1) Downloading 'SRR1193874'... 2020-06-21T12:00:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:05:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:05:13 prefetch.2.10.7: 1) 'SRR1193874' was downloaded successfully Read 29522238 spots for SRR1193874/SRR1193874.sra Written 29522238 spots for SRR1193874/SRR1193874.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: 00:04:44 29522238 reads; of these: 29522238 (100.00%) were unpaired; of these: 1281333 (4.34%) aligned 0 times 26465315 (89.65%) aligned exactly 1 time 1775590 (6.01%) aligned >1 times 95.66% overall alignment rate Time searching: 00:04:44 Overall time: 00:04:44 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3321670 / 28240905 = 0.1176 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 @ Sun, 21 Jun 2020 21:16:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.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 @ Sun, 21 Jun 2020 21:16:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:16:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:17:00: 1000000 INFO @ Sun, 21 Jun 2020 21:17:05: 2000000 INFO @ Sun, 21 Jun 2020 21:17:10: 3000000 INFO @ Sun, 21 Jun 2020 21:17:15: 4000000 INFO @ Sun, 21 Jun 2020 21:17:20: 5000000 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 @ Sun, 21 Jun 2020 21:17:25: 6000000 INFO @ Sun, 21 Jun 2020 21:17:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.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 @ Sun, 21 Jun 2020 21:17:25: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:17:25: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:17:30: 7000000 INFO @ Sun, 21 Jun 2020 21:17:31: 1000000 INFO @ Sun, 21 Jun 2020 21:17:36: 8000000 INFO @ Sun, 21 Jun 2020 21:17:36: 2000000 INFO @ Sun, 21 Jun 2020 21:17:41: 9000000 INFO @ Sun, 21 Jun 2020 21:17:41: 3000000 INFO @ Sun, 21 Jun 2020 21:17:46: 10000000 INFO @ Sun, 21 Jun 2020 21:17:47: 4000000 INFO @ Sun, 21 Jun 2020 21:17:52: 11000000 INFO @ Sun, 21 Jun 2020 21:17:52: 5000000 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 @ Sun, 21 Jun 2020 21:17:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.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 @ Sun, 21 Jun 2020 21:17:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:17:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:17:57: 12000000 INFO @ Sun, 21 Jun 2020 21:17:58: 6000000 INFO @ Sun, 21 Jun 2020 21:18:01: 1000000 INFO @ Sun, 21 Jun 2020 21:18:02: 13000000 INFO @ Sun, 21 Jun 2020 21:18:03: 7000000 INFO @ Sun, 21 Jun 2020 21:18:06: 2000000 INFO @ Sun, 21 Jun 2020 21:18:08: 14000000 INFO @ Sun, 21 Jun 2020 21:18:09: 8000000 INFO @ Sun, 21 Jun 2020 21:18:12: 3000000 INFO @ Sun, 21 Jun 2020 21:18:13: 15000000 INFO @ Sun, 21 Jun 2020 21:18:14: 9000000 INFO @ Sun, 21 Jun 2020 21:18:17: 4000000 INFO @ Sun, 21 Jun 2020 21:18:18: 16000000 INFO @ Sun, 21 Jun 2020 21:18:19: 10000000 INFO @ Sun, 21 Jun 2020 21:18:22: 5000000 INFO @ Sun, 21 Jun 2020 21:18:24: 17000000 INFO @ Sun, 21 Jun 2020 21:18:25: 11000000 INFO @ Sun, 21 Jun 2020 21:18:28: 6000000 INFO @ Sun, 21 Jun 2020 21:18:29: 18000000 INFO @ Sun, 21 Jun 2020 21:18:30: 12000000 INFO @ Sun, 21 Jun 2020 21:18:33: 7000000 INFO @ Sun, 21 Jun 2020 21:18:34: 19000000 INFO @ Sun, 21 Jun 2020 21:18:36: 13000000 INFO @ Sun, 21 Jun 2020 21:18:39: 8000000 INFO @ Sun, 21 Jun 2020 21:18:40: 20000000 INFO @ Sun, 21 Jun 2020 21:18:41: 14000000 INFO @ Sun, 21 Jun 2020 21:18:44: 9000000 INFO @ Sun, 21 Jun 2020 21:18:45: 21000000 INFO @ Sun, 21 Jun 2020 21:18:46: 15000000 INFO @ Sun, 21 Jun 2020 21:18:49: 10000000 INFO @ Sun, 21 Jun 2020 21:18:51: 22000000 INFO @ Sun, 21 Jun 2020 21:18:52: 16000000 INFO @ Sun, 21 Jun 2020 21:18:55: 11000000 INFO @ Sun, 21 Jun 2020 21:18:56: 23000000 INFO @ Sun, 21 Jun 2020 21:18:57: 17000000 INFO @ Sun, 21 Jun 2020 21:19:00: 12000000 INFO @ Sun, 21 Jun 2020 21:19:02: 24000000 INFO @ Sun, 21 Jun 2020 21:19:03: 18000000 INFO @ Sun, 21 Jun 2020 21:19:06: 13000000 INFO @ Sun, 21 Jun 2020 21:19:07: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 21:19:07: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 21:19:07: #1 total tags in treatment: 24919235 INFO @ Sun, 21 Jun 2020 21:19:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:19:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:19:07: #1 tags after filtering in treatment: 24919103 INFO @ Sun, 21 Jun 2020 21:19:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:19:07: #1 finished! INFO @ Sun, 21 Jun 2020 21:19:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:19:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:19:08: 19000000 INFO @ Sun, 21 Jun 2020 21:19:09: #2 number of paired peaks: 3 WARNING @ Sun, 21 Jun 2020 21:19:09: Too few paired peaks (3) 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 @ Sun, 21 Jun 2020 21:19:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.05_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/dm6/SRX490729/SRX490729.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:19:11: 14000000 INFO @ Sun, 21 Jun 2020 21:19:13: 20000000 INFO @ Sun, 21 Jun 2020 21:19:16: 15000000 INFO @ Sun, 21 Jun 2020 21:19:19: 21000000 INFO @ Sun, 21 Jun 2020 21:19:22: 16000000 INFO @ Sun, 21 Jun 2020 21:19:25: 22000000 INFO @ Sun, 21 Jun 2020 21:19:27: 17000000 INFO @ Sun, 21 Jun 2020 21:19:30: 23000000 INFO @ Sun, 21 Jun 2020 21:19:32: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:19:35: 24000000 INFO @ Sun, 21 Jun 2020 21:19:38: 19000000 INFO @ Sun, 21 Jun 2020 21:19:40: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 21:19:40: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 21:19:40: #1 total tags in treatment: 24919235 INFO @ Sun, 21 Jun 2020 21:19:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:19:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:19:41: #1 tags after filtering in treatment: 24919103 INFO @ Sun, 21 Jun 2020 21:19:41: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:19:41: #1 finished! INFO @ Sun, 21 Jun 2020 21:19:41: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:19:41: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:19:43: #2 number of paired peaks: 3 WARNING @ Sun, 21 Jun 2020 21:19:43: Too few paired peaks (3) 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 @ Sun, 21 Jun 2020 21:19:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.10_peaks.narrowPeak: No such file or directory INFO @ Sun, 21 Jun 2020 21:19:43: 20000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:19:48: 21000000 INFO @ Sun, 21 Jun 2020 21:19:53: 22000000 INFO @ Sun, 21 Jun 2020 21:19:58: 23000000 INFO @ Sun, 21 Jun 2020 21:20:03: 24000000 INFO @ Sun, 21 Jun 2020 21:20:08: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 21:20:08: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 21:20:08: #1 total tags in treatment: 24919235 INFO @ Sun, 21 Jun 2020 21:20:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:20:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:20:08: #1 tags after filtering in treatment: 24919103 INFO @ Sun, 21 Jun 2020 21:20:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:20:08: #1 finished! INFO @ Sun, 21 Jun 2020 21:20:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:20:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:20:10: #2 number of paired peaks: 3 WARNING @ Sun, 21 Jun 2020 21:20:10: Too few paired peaks (3) 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 @ Sun, 21 Jun 2020 21:20:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.20_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/dm6/SRX490729/SRX490729.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX490729/SRX490729.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。