Job ID = 7115608 SRX = SRX8539206 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T06:11:13 prefetch.2.10.7: 1) Downloading 'SRR12006027'... 2020-07-22T06:11:13 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:12:44 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:12:45 prefetch.2.10.7: 'SRR12006027' is valid 2020-07-22T06:12:45 prefetch.2.10.7: 1) 'SRR12006027' was downloaded successfully Read 17228376 spots for SRR12006027/SRR12006027.sra Written 17228376 spots for SRR12006027/SRR12006027.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: 00:01:46 17228376 reads; of these: 17228376 (100.00%) were unpaired; of these: 2476811 (14.38%) aligned 0 times 12565810 (72.94%) aligned exactly 1 time 2185755 (12.69%) aligned >1 times 85.62% overall alignment rate Time searching: 00:01:46 Overall time: 00:01:46 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_sort_core] merging from 8 files... [bam_rmdupse_core] 5126629 / 14751565 = 0.3475 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 15:18:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.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 15:18:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:37: 1000000 INFO @ Wed, 22 Jul 2020 15:18:43: 2000000 INFO @ Wed, 22 Jul 2020 15:18:49: 3000000 INFO @ Wed, 22 Jul 2020 15:18:54: 4000000 INFO @ Wed, 22 Jul 2020 15:19:00: 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 @ Wed, 22 Jul 2020 15:19:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.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 15:19:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:19:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:19:06: 6000000 INFO @ Wed, 22 Jul 2020 15:19:09: 1000000 INFO @ Wed, 22 Jul 2020 15:19:12: 7000000 INFO @ Wed, 22 Jul 2020 15:19:15: 2000000 INFO @ Wed, 22 Jul 2020 15:19:19: 8000000 INFO @ Wed, 22 Jul 2020 15:19:22: 3000000 INFO @ Wed, 22 Jul 2020 15:19:27: 9000000 INFO @ Wed, 22 Jul 2020 15:19:29: 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 15:19:31: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:19:31: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:19:31: #1 total tags in treatment: 9624936 INFO @ Wed, 22 Jul 2020 15:19:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:19:31: #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 15:19:31: #1 tags after filtering in treatment: 9624936 INFO @ Wed, 22 Jul 2020 15:19:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:19:31: #1 finished! INFO @ Wed, 22 Jul 2020 15:19:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:19:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:19:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:19:32: 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 15:19:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.05_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/sacCer3/SRX8539206/SRX8539206.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:19:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.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 15:19:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:19:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:19:36: 5000000 INFO @ Wed, 22 Jul 2020 15:19:39: 1000000 INFO @ Wed, 22 Jul 2020 15:19:42: 6000000 INFO @ Wed, 22 Jul 2020 15:19:47: 2000000 INFO @ Wed, 22 Jul 2020 15:19:49: 7000000 INFO @ Wed, 22 Jul 2020 15:19:55: 3000000 INFO @ Wed, 22 Jul 2020 15:19:56: 8000000 INFO @ Wed, 22 Jul 2020 15:20:02: 4000000 INFO @ Wed, 22 Jul 2020 15:20:02: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:20:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:20:06: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:20:06: #1 total tags in treatment: 9624936 INFO @ Wed, 22 Jul 2020 15:20:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:20:06: #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 15:20:07: #1 tags after filtering in treatment: 9624936 INFO @ Wed, 22 Jul 2020 15:20:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:20:07: #1 finished! INFO @ Wed, 22 Jul 2020 15:20:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:20:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:20:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:20:07: 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 15:20:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.10_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/SRX8539206/SRX8539206.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:20:08: 5000000 INFO @ Wed, 22 Jul 2020 15:20:15: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:20:21: 7000000 INFO @ Wed, 22 Jul 2020 15:20:26: 8000000 INFO @ Wed, 22 Jul 2020 15:20:32: 9000000 INFO @ Wed, 22 Jul 2020 15:20:35: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:20:35: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:20:35: #1 total tags in treatment: 9624936 INFO @ Wed, 22 Jul 2020 15:20:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:20:35: #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 15:20:35: #1 tags after filtering in treatment: 9624936 INFO @ Wed, 22 Jul 2020 15:20:35: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:20:35: #1 finished! INFO @ Wed, 22 Jul 2020 15:20:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:20:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:20:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:20:36: 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 15:20:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.20_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/SRX8539206/SRX8539206.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539206/SRX8539206.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling