Job ID = 6527966 SRX = SRX3511945 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:51:45 prefetch.2.10.7: 1) Downloading 'SRR6418930'... 2020-06-29T13:51:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:54:23 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:54:24 prefetch.2.10.7: 'SRR6418930' is valid 2020-06-29T13:54:24 prefetch.2.10.7: 1) 'SRR6418930' was downloaded successfully 2020-06-29T13:54:24 prefetch.2.10.7: 'SRR6418930' has 0 unresolved dependencies Read 11385708 spots for SRR6418930/SRR6418930.sra Written 11385708 spots for SRR6418930/SRR6418930.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: 00:05:26 11385708 reads; of these: 11385708 (100.00%) were unpaired; of these: 1985375 (17.44%) aligned 0 times 7395448 (64.95%) aligned exactly 1 time 2004885 (17.61%) aligned >1 times 82.56% overall alignment rate Time searching: 00:05:26 Overall time: 00:05:26 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_rmdupse_core] 387702 / 9400333 = 0.0412 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 23:12:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.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 23:12:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:12:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:12:12: 1000000 INFO @ Mon, 29 Jun 2020 23:12:18: 2000000 INFO @ Mon, 29 Jun 2020 23:12:24: 3000000 INFO @ Mon, 29 Jun 2020 23:12:30: 4000000 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 23:12:36: 5000000 INFO @ Mon, 29 Jun 2020 23:12:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.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 23:12:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:12:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:12:43: 6000000 INFO @ Mon, 29 Jun 2020 23:12:43: 1000000 INFO @ Mon, 29 Jun 2020 23:12:49: 7000000 INFO @ Mon, 29 Jun 2020 23:12:49: 2000000 INFO @ Mon, 29 Jun 2020 23:12:55: 8000000 INFO @ Mon, 29 Jun 2020 23:12:56: 3000000 INFO @ Mon, 29 Jun 2020 23:13:02: 9000000 INFO @ Mon, 29 Jun 2020 23:13:02: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:13:02: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:13:02: #1 total tags in treatment: 9012631 INFO @ Mon, 29 Jun 2020 23:13:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:13:02: #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 23:13:02: #1 tags after filtering in treatment: 9012631 INFO @ Mon, 29 Jun 2020 23:13:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:13:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:13:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:13:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:13:02: 4000000 INFO @ Mon, 29 Jun 2020 23:13:03: #2 number of paired peaks: 27 WARNING @ Mon, 29 Jun 2020 23:13:03: Too few paired peaks (27) 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 23:13:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.05_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/SRX3511945/SRX3511945.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 23:13:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.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 23:13:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:13:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:13:09: 5000000 INFO @ Mon, 29 Jun 2020 23:13:13: 1000000 INFO @ Mon, 29 Jun 2020 23:13:15: 6000000 INFO @ Mon, 29 Jun 2020 23:13:19: 2000000 INFO @ Mon, 29 Jun 2020 23:13:22: 7000000 INFO @ Mon, 29 Jun 2020 23:13:26: 3000000 INFO @ Mon, 29 Jun 2020 23:13:28: 8000000 INFO @ Mon, 29 Jun 2020 23:13:32: 4000000 INFO @ Mon, 29 Jun 2020 23:13:35: 9000000 INFO @ Mon, 29 Jun 2020 23:13:35: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:13:35: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:13:35: #1 total tags in treatment: 9012631 INFO @ Mon, 29 Jun 2020 23:13:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:13:35: #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 23:13:35: #1 tags after filtering in treatment: 9012631 INFO @ Mon, 29 Jun 2020 23:13:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:13:35: #1 finished! INFO @ Mon, 29 Jun 2020 23:13:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:13:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:13:36: #2 number of paired peaks: 27 WARNING @ Mon, 29 Jun 2020 23:13:36: Too few paired peaks (27) 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 23:13:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:13:38: 5000000 INFO @ Mon, 29 Jun 2020 23:13:45: 6000000 INFO @ Mon, 29 Jun 2020 23:13:51: 7000000 INFO @ Mon, 29 Jun 2020 23:13:57: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:14:04: 9000000 INFO @ Mon, 29 Jun 2020 23:14:04: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:14:04: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:14:04: #1 total tags in treatment: 9012631 INFO @ Mon, 29 Jun 2020 23:14:04: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:14:04: #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 23:14:04: #1 tags after filtering in treatment: 9012631 INFO @ Mon, 29 Jun 2020 23:14:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:14:04: #1 finished! INFO @ Mon, 29 Jun 2020 23:14:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:14:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:14:04: #2 number of paired peaks: 27 WARNING @ Mon, 29 Jun 2020 23:14:04: Too few paired peaks (27) 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 23:14:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.20_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/SRX3511945/SRX3511945.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511945/SRX3511945.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。