Job ID = 7119796 SRX = SRX8641901 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T07:30:39 prefetch.2.10.7: 1) Downloading 'SRR12120434'... 2020-07-22T07:30:39 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:32:34 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:32:35 prefetch.2.10.7: 'SRR12120434' is valid 2020-07-22T07:32:35 prefetch.2.10.7: 1) 'SRR12120434' was downloaded successfully 2020-07-22T07:32:35 prefetch.2.10.7: 'SRR12120434' has 0 unresolved dependencies Read 11476736 spots for SRR12120434/SRR12120434.sra Written 11476736 spots for SRR12120434/SRR12120434.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: 00:03:27 11476736 reads; of these: 11476736 (100.00%) were unpaired; of these: 1799887 (15.68%) aligned 0 times 8452156 (73.65%) aligned exactly 1 time 1224693 (10.67%) aligned >1 times 84.32% overall alignment rate Time searching: 00:03:27 Overall time: 00:03:27 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdupse_core] 4810352 / 9676849 = 0.4971 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 @ Wed, 22 Jul 2020 16:40:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:40:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:40:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:40:13: 1000000 INFO @ Wed, 22 Jul 2020 16:40:19: 2000000 INFO @ Wed, 22 Jul 2020 16:40:26: 3000000 INFO @ Wed, 22 Jul 2020 16:40:32: 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 @ Wed, 22 Jul 2020 16:40:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:40:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:40:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:40:37: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:40:37: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:40:37: #1 total tags in treatment: 4866497 INFO @ Wed, 22 Jul 2020 16:40:37: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:40:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:40:38: #1 tags after filtering in treatment: 4866497 INFO @ Wed, 22 Jul 2020 16:40:38: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:40:38: #1 finished! INFO @ Wed, 22 Jul 2020 16:40:38: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:40:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:40:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:40:38: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:40:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.05_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/sacCer3/SRX8641901/SRX8641901.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:40:43: 1000000 INFO @ Wed, 22 Jul 2020 16:40:49: 2000000 INFO @ Wed, 22 Jul 2020 16:40:56: 3000000 INFO @ Wed, 22 Jul 2020 16:41:02: 4000000 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 @ Wed, 22 Jul 2020 16:41:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:41:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:41:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:41:08: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:41:08: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:41:08: #1 total tags in treatment: 4866497 INFO @ Wed, 22 Jul 2020 16:41:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:41:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:41:08: #1 tags after filtering in treatment: 4866497 INFO @ Wed, 22 Jul 2020 16:41:08: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:41:08: #1 finished! INFO @ Wed, 22 Jul 2020 16:41:08: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:41:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:41:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:41:08: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:41:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.10_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/sacCer3/SRX8641901/SRX8641901.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:41:13: 1000000 INFO @ Wed, 22 Jul 2020 16:41:19: 2000000 INFO @ Wed, 22 Jul 2020 16:41:26: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:41:32: 4000000 INFO @ Wed, 22 Jul 2020 16:41:38: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:41:38: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:41:38: #1 total tags in treatment: 4866497 INFO @ Wed, 22 Jul 2020 16:41:38: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:41:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:41:38: #1 tags after filtering in treatment: 4866497 INFO @ Wed, 22 Jul 2020 16:41:38: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:41:38: #1 finished! INFO @ Wed, 22 Jul 2020 16:41:38: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:41:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:41:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:41:38: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:41:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.20_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/sacCer3/SRX8641901/SRX8641901.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641901/SRX8641901.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。