Job ID = 7118756 SRX = SRX8641880 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T07:25:18 prefetch.2.10.7: 1) Downloading 'SRR12120413'... 2020-07-22T07:25:18 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:27:20 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:27:20 prefetch.2.10.7: 1) 'SRR12120413' was downloaded successfully 2020-07-22T07:27:20 prefetch.2.10.7: 'SRR12120413' has 0 unresolved dependencies Read 15340333 spots for SRR12120413/SRR12120413.sra Written 15340333 spots for SRR12120413/SRR12120413.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: 00:04:59 15340333 reads; of these: 15340333 (100.00%) were unpaired; of these: 1392169 (9.08%) aligned 0 times 12523732 (81.64%) aligned exactly 1 time 1424432 (9.29%) aligned >1 times 90.92% overall alignment rate Time searching: 00:04:59 Overall time: 00:04:59 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] 9265083 / 13948164 = 0.6643 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 16:37:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.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 16:37:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:37:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:37:44: 1000000 INFO @ Wed, 22 Jul 2020 16:37:51: 2000000 INFO @ Wed, 22 Jul 2020 16:37:58: 3000000 INFO @ Wed, 22 Jul 2020 16:38:05: 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 16:38:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.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 16:38:07: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:38:07: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:38:10: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:38:10: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:38:10: #1 total tags in treatment: 4683081 INFO @ Wed, 22 Jul 2020 16:38:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:38:10: #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 16:38:10: #1 tags after filtering in treatment: 4683081 INFO @ Wed, 22 Jul 2020 16:38:10: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:38:10: #1 finished! INFO @ Wed, 22 Jul 2020 16:38:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:38:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:38:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:38:11: 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 16:38:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.05_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/SRX8641880/SRX8641880.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:38:14: 1000000 INFO @ Wed, 22 Jul 2020 16:38:22: 2000000 INFO @ Wed, 22 Jul 2020 16:38:28: 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 16:38:35: 4000000 INFO @ Wed, 22 Jul 2020 16:38:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.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 16:38:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:38:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:38:40: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:38:40: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:38:40: #1 total tags in treatment: 4683081 INFO @ Wed, 22 Jul 2020 16:38:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:38:40: #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 16:38:40: #1 tags after filtering in treatment: 4683081 INFO @ Wed, 22 Jul 2020 16:38:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:38:40: #1 finished! INFO @ Wed, 22 Jul 2020 16:38:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:38:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:38:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:38:41: 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 16:38:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.10_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/SRX8641880/SRX8641880.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:38:44: 1000000 INFO @ Wed, 22 Jul 2020 16:38:52: 2000000 INFO @ Wed, 22 Jul 2020 16:38:59: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:39:06: 4000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:39:11: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:39:11: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:39:11: #1 total tags in treatment: 4683081 INFO @ Wed, 22 Jul 2020 16:39:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:39:11: #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 16:39:11: #1 tags after filtering in treatment: 4683081 INFO @ Wed, 22 Jul 2020 16:39:11: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:39:11: #1 finished! INFO @ Wed, 22 Jul 2020 16:39:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:39:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:39:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:39:11: 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 16:39:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.20_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/SRX8641880/SRX8641880.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641880/SRX8641880.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling