Job ID = 6527515 SRX = SRX042244 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:49:53 prefetch.2.10.7: 1) Downloading 'SRR100225'... 2020-06-29T12:49:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:55:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:55:06 prefetch.2.10.7: 1) 'SRR100225' was downloaded successfully Read 19158137 spots for SRR100225/SRR100225.sra Written 19158137 spots for SRR100225/SRR100225.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:02 19158137 reads; of these: 19158137 (100.00%) were unpaired; of these: 4502925 (23.50%) aligned 0 times 11914865 (62.19%) aligned exactly 1 time 2740347 (14.30%) aligned >1 times 76.50% overall alignment rate Time searching: 00:07:03 Overall time: 00:07:03 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4318816 / 14655212 = 0.2947 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 22:15:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.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 22:15:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:26: 1000000 INFO @ Mon, 29 Jun 2020 22:15:31: 2000000 INFO @ Mon, 29 Jun 2020 22:15:36: 3000000 INFO @ Mon, 29 Jun 2020 22:15:42: 4000000 INFO @ Mon, 29 Jun 2020 22:15:47: 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 @ Mon, 29 Jun 2020 22:15:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.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 22:15:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:52: 6000000 INFO @ Mon, 29 Jun 2020 22:15:56: 1000000 INFO @ Mon, 29 Jun 2020 22:15:58: 7000000 INFO @ Mon, 29 Jun 2020 22:16:01: 2000000 INFO @ Mon, 29 Jun 2020 22:16:03: 8000000 INFO @ Mon, 29 Jun 2020 22:16:07: 3000000 INFO @ Mon, 29 Jun 2020 22:16:09: 9000000 INFO @ Mon, 29 Jun 2020 22:16:12: 4000000 INFO @ Mon, 29 Jun 2020 22:16:14: 10000000 INFO @ Mon, 29 Jun 2020 22:16:16: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:16:16: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:16:16: #1 total tags in treatment: 10336396 INFO @ Mon, 29 Jun 2020 22:16:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:16: #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 22:16:16: #1 tags after filtering in treatment: 10336396 INFO @ Mon, 29 Jun 2020 22:16:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:16: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:17: #2 number of paired peaks: 99 WARNING @ Mon, 29 Jun 2020 22:16:17: Too few paired peaks (99) 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 22:16:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.05_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/dm3/SRX042244/SRX042244.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:17: 5000000 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 22:16:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.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 22:16:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:16:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:16:23: 6000000 INFO @ Mon, 29 Jun 2020 22:16:26: 1000000 INFO @ Mon, 29 Jun 2020 22:16:28: 7000000 INFO @ Mon, 29 Jun 2020 22:16:31: 2000000 INFO @ Mon, 29 Jun 2020 22:16:34: 8000000 INFO @ Mon, 29 Jun 2020 22:16:37: 3000000 INFO @ Mon, 29 Jun 2020 22:16:39: 9000000 INFO @ Mon, 29 Jun 2020 22:16:43: 4000000 INFO @ Mon, 29 Jun 2020 22:16:45: 10000000 INFO @ Mon, 29 Jun 2020 22:16:47: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:16:47: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:16:47: #1 total tags in treatment: 10336396 INFO @ Mon, 29 Jun 2020 22:16:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:47: #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 22:16:47: #1 tags after filtering in treatment: 10336396 INFO @ Mon, 29 Jun 2020 22:16:47: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:47: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:47: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:47: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:48: #2 number of paired peaks: 99 WARNING @ Mon, 29 Jun 2020 22:16:48: Too few paired peaks (99) 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 22:16:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.10_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/dm3/SRX042244/SRX042244.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:48: 5000000 INFO @ Mon, 29 Jun 2020 22:16:53: 6000000 INFO @ Mon, 29 Jun 2020 22:16:59: 7000000 INFO @ Mon, 29 Jun 2020 22:17:04: 8000000 INFO @ Mon, 29 Jun 2020 22:17:10: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:17:15: 10000000 INFO @ Mon, 29 Jun 2020 22:17:17: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:17:17: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:17:17: #1 total tags in treatment: 10336396 INFO @ Mon, 29 Jun 2020 22:17:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:17:17: #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 22:17:18: #1 tags after filtering in treatment: 10336396 INFO @ Mon, 29 Jun 2020 22:17:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:17:18: #1 finished! INFO @ Mon, 29 Jun 2020 22:17:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:17:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:17:18: #2 number of paired peaks: 99 WARNING @ Mon, 29 Jun 2020 22:17:18: Too few paired peaks (99) 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 22:17:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.20_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/dm3/SRX042244/SRX042244.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX042244/SRX042244.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。