Job ID = 6527726 SRX = SRX2564139 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:24:49 prefetch.2.10.7: 1) Downloading 'SRR5259258'... 2020-06-29T13:24:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:29:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:29:01 prefetch.2.10.7: 1) 'SRR5259258' was downloaded successfully 2020-06-29T13:29:01 prefetch.2.10.7: 'SRR5259258' has 0 unresolved dependencies Read 36771692 spots for SRR5259258/SRR5259258.sra Written 36771692 spots for SRR5259258/SRR5259258.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: 00:13:39 36771692 reads; of these: 36771692 (100.00%) were unpaired; of these: 8860337 (24.10%) aligned 0 times 20913147 (56.87%) aligned exactly 1 time 6998208 (19.03%) aligned >1 times 75.90% overall alignment rate Time searching: 00:13:39 Overall time: 00:13:39 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 12 files... [bam_rmdupse_core] 7485693 / 27911355 = 0.2682 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 @ Mon, 29 Jun 2020 23:08:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.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 @ Mon, 29 Jun 2020 23:08:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:08:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:08:17: 1000000 INFO @ Mon, 29 Jun 2020 23:08:22: 2000000 INFO @ Mon, 29 Jun 2020 23:08:28: 3000000 INFO @ Mon, 29 Jun 2020 23:08:33: 4000000 INFO @ Mon, 29 Jun 2020 23:08:39: 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 @ Mon, 29 Jun 2020 23:08:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.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 @ Mon, 29 Jun 2020 23:08:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:08:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:08:45: 6000000 INFO @ Mon, 29 Jun 2020 23:08:47: 1000000 INFO @ Mon, 29 Jun 2020 23:08:51: 7000000 INFO @ Mon, 29 Jun 2020 23:08:53: 2000000 INFO @ Mon, 29 Jun 2020 23:08:57: 8000000 INFO @ Mon, 29 Jun 2020 23:08:58: 3000000 INFO @ Mon, 29 Jun 2020 23:09:03: 9000000 INFO @ Mon, 29 Jun 2020 23:09:04: 4000000 INFO @ Mon, 29 Jun 2020 23:09:09: 10000000 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 @ Mon, 29 Jun 2020 23:09:10: 5000000 INFO @ Mon, 29 Jun 2020 23:09:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.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 @ Mon, 29 Jun 2020 23:09:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:09:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:09:15: 11000000 INFO @ Mon, 29 Jun 2020 23:09:16: 6000000 INFO @ Mon, 29 Jun 2020 23:09:17: 1000000 INFO @ Mon, 29 Jun 2020 23:09:21: 12000000 INFO @ Mon, 29 Jun 2020 23:09:22: 7000000 INFO @ Mon, 29 Jun 2020 23:09:23: 2000000 INFO @ Mon, 29 Jun 2020 23:09:26: 13000000 INFO @ Mon, 29 Jun 2020 23:09:28: 8000000 INFO @ Mon, 29 Jun 2020 23:09:29: 3000000 INFO @ Mon, 29 Jun 2020 23:09:32: 14000000 INFO @ Mon, 29 Jun 2020 23:09:34: 9000000 INFO @ Mon, 29 Jun 2020 23:09:35: 4000000 INFO @ Mon, 29 Jun 2020 23:09:38: 15000000 INFO @ Mon, 29 Jun 2020 23:09:40: 10000000 INFO @ Mon, 29 Jun 2020 23:09:41: 5000000 INFO @ Mon, 29 Jun 2020 23:09:45: 16000000 INFO @ Mon, 29 Jun 2020 23:09:46: 11000000 INFO @ Mon, 29 Jun 2020 23:09:47: 6000000 INFO @ Mon, 29 Jun 2020 23:09:51: 17000000 INFO @ Mon, 29 Jun 2020 23:09:51: 12000000 INFO @ Mon, 29 Jun 2020 23:09:53: 7000000 INFO @ Mon, 29 Jun 2020 23:09:56: 18000000 INFO @ Mon, 29 Jun 2020 23:09:57: 13000000 INFO @ Mon, 29 Jun 2020 23:09:59: 8000000 INFO @ Mon, 29 Jun 2020 23:10:02: 19000000 INFO @ Mon, 29 Jun 2020 23:10:03: 14000000 INFO @ Mon, 29 Jun 2020 23:10:05: 9000000 INFO @ Mon, 29 Jun 2020 23:10:08: 20000000 INFO @ Mon, 29 Jun 2020 23:10:09: 15000000 INFO @ Mon, 29 Jun 2020 23:10:10: 10000000 INFO @ Mon, 29 Jun 2020 23:10:11: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:10:11: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:10:11: #1 total tags in treatment: 20425662 INFO @ Mon, 29 Jun 2020 23:10:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:10:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:10:11: #1 tags after filtering in treatment: 20425662 INFO @ Mon, 29 Jun 2020 23:10:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:10:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:10:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:10:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:10:13: #2 number of paired peaks: 60 WARNING @ Mon, 29 Jun 2020 23:10:13: Too few paired peaks (60) 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 @ Mon, 29 Jun 2020 23:10:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.05_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/dm3/SRX2564139/SRX2564139.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:10:15: 16000000 INFO @ Mon, 29 Jun 2020 23:10:16: 11000000 INFO @ Mon, 29 Jun 2020 23:10:21: 17000000 INFO @ Mon, 29 Jun 2020 23:10:22: 12000000 INFO @ Mon, 29 Jun 2020 23:10:27: 18000000 INFO @ Mon, 29 Jun 2020 23:10:28: 13000000 INFO @ Mon, 29 Jun 2020 23:10:32: 19000000 INFO @ Mon, 29 Jun 2020 23:10:34: 14000000 INFO @ Mon, 29 Jun 2020 23:10:38: 20000000 INFO @ Mon, 29 Jun 2020 23:10:40: 15000000 INFO @ Mon, 29 Jun 2020 23:10:41: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:10:41: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:10:41: #1 total tags in treatment: 20425662 INFO @ Mon, 29 Jun 2020 23:10:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:10:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:10:41: #1 tags after filtering in treatment: 20425662 INFO @ Mon, 29 Jun 2020 23:10:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:10:41: #1 finished! INFO @ Mon, 29 Jun 2020 23:10:41: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:10:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:10:42: #2 number of paired peaks: 60 WARNING @ Mon, 29 Jun 2020 23:10:42: Too few paired peaks (60) 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 @ Mon, 29 Jun 2020 23:10:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.10_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/SRX2564139/SRX2564139.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:10:46: 16000000 INFO @ Mon, 29 Jun 2020 23:10:52: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:10:57: 18000000 INFO @ Mon, 29 Jun 2020 23:11:03: 19000000 INFO @ Mon, 29 Jun 2020 23:11:09: 20000000 INFO @ Mon, 29 Jun 2020 23:11:11: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:11:11: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:11:11: #1 total tags in treatment: 20425662 INFO @ Mon, 29 Jun 2020 23:11:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:11:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:11:11: #1 tags after filtering in treatment: 20425662 INFO @ Mon, 29 Jun 2020 23:11:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:11:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:11:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:11:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:11:13: #2 number of paired peaks: 60 WARNING @ Mon, 29 Jun 2020 23:11:13: Too few paired peaks (60) 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 @ Mon, 29 Jun 2020 23:11:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.20_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/SRX2564139/SRX2564139.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564139/SRX2564139.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。