Job ID = 7118540 SRX = SRX8641860 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T07:23:32 prefetch.2.10.7: 1) Downloading 'SRR12120468'... 2020-07-22T07:23:32 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:25:08 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:25:08 prefetch.2.10.7: 1) 'SRR12120468' was downloaded successfully 2020-07-22T07:25:08 prefetch.2.10.7: 'SRR12120468' has 0 unresolved dependencies Read 13312509 spots for SRR12120468/SRR12120468.sra Written 13312509 spots for SRR12120468/SRR12120468.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: 00:03:48 13312509 reads; of these: 13312509 (100.00%) were unpaired; of these: 2198661 (16.52%) aligned 0 times 10125828 (76.06%) aligned exactly 1 time 988020 (7.42%) aligned >1 times 83.48% overall alignment rate Time searching: 00:03:48 Overall time: 00:03:48 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] 6935948 / 11113848 = 0.6241 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 16:33:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.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 16:33:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:33:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:34:00: 1000000 INFO @ Wed, 22 Jul 2020 16:34:07: 2000000 INFO @ Wed, 22 Jul 2020 16:34:15: 3000000 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 16:34:22: 4000000 INFO @ Wed, 22 Jul 2020 16:34:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.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 16:34:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:34:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:34:23: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:34:23: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:34:23: #1 total tags in treatment: 4177900 INFO @ Wed, 22 Jul 2020 16:34:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:34:23: #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 16:34:23: #1 tags after filtering in treatment: 4177900 INFO @ Wed, 22 Jul 2020 16:34:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:34:23: #1 finished! INFO @ Wed, 22 Jul 2020 16:34:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:34:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:34:24: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:34:24: 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 16:34:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.05_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/SRX8641860/SRX8641860.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:34:32: 1000000 INFO @ Wed, 22 Jul 2020 16:34:41: 2000000 INFO @ Wed, 22 Jul 2020 16:34:50: 3000000 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 16:34:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.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 16:34:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:34:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:35:00: 4000000 INFO @ Wed, 22 Jul 2020 16:35:01: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:35:01: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:35:01: #1 total tags in treatment: 4177900 INFO @ Wed, 22 Jul 2020 16:35:01: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:01: #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 16:35:02: #1 tags after filtering in treatment: 4177900 INFO @ Wed, 22 Jul 2020 16:35:02: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:35:02: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:02: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:02: 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 16:35:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.10_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/SRX8641860/SRX8641860.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:35:02: 1000000 INFO @ Wed, 22 Jul 2020 16:35:10: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:35:19: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:35:26: 4000000 INFO @ Wed, 22 Jul 2020 16:35:28: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:35:28: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:35:28: #1 total tags in treatment: 4177900 INFO @ Wed, 22 Jul 2020 16:35:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:28: #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 16:35:28: #1 tags after filtering in treatment: 4177900 INFO @ Wed, 22 Jul 2020 16:35:28: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:35:28: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:28: 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 16:35:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.20_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/sacCer3/SRX8641860/SRX8641860.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641860/SRX8641860.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling