Job ID = 6527617 SRX = SRX1490787 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:16:53 prefetch.2.10.7: 1) Downloading 'SRR3031654'... 2020-06-29T13:16:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:17:58 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:17:59 prefetch.2.10.7: 'SRR3031654' is valid 2020-06-29T13:17:59 prefetch.2.10.7: 1) 'SRR3031654' was downloaded successfully Read 14296447 spots for SRR3031654/SRR3031654.sra Written 14296447 spots for SRR3031654/SRR3031654.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:22 14296447 reads; of these: 14296447 (100.00%) were unpaired; of these: 910883 (6.37%) aligned 0 times 10860490 (75.97%) aligned exactly 1 time 2525074 (17.66%) aligned >1 times 93.63% overall alignment rate Time searching: 00:04:23 Overall time: 00:04:23 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] 848643 / 13385564 = 0.0634 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 22:30:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.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 22:30:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:30:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:30:09: 1000000 INFO @ Mon, 29 Jun 2020 22:30:14: 2000000 INFO @ Mon, 29 Jun 2020 22:30:19: 3000000 INFO @ Mon, 29 Jun 2020 22:30:24: 4000000 INFO @ Mon, 29 Jun 2020 22:30:29: 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 22:30:34: 6000000 INFO @ Mon, 29 Jun 2020 22:30:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.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 22:30:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:30:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:30:39: 7000000 INFO @ Mon, 29 Jun 2020 22:30:39: 1000000 INFO @ Mon, 29 Jun 2020 22:30:44: 8000000 INFO @ Mon, 29 Jun 2020 22:30:44: 2000000 INFO @ Mon, 29 Jun 2020 22:30:49: 9000000 INFO @ Mon, 29 Jun 2020 22:30:49: 3000000 INFO @ Mon, 29 Jun 2020 22:30:54: 10000000 INFO @ Mon, 29 Jun 2020 22:30:54: 4000000 INFO @ Mon, 29 Jun 2020 22:30:59: 11000000 INFO @ Mon, 29 Jun 2020 22:31:00: 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 22:31:04: 12000000 INFO @ Mon, 29 Jun 2020 22:31:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.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 22:31:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:31:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:31:05: 6000000 INFO @ Mon, 29 Jun 2020 22:31:07: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:31:07: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:31:07: #1 total tags in treatment: 12536921 INFO @ Mon, 29 Jun 2020 22:31:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:31:07: #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 22:31:07: #1 tags after filtering in treatment: 12536921 INFO @ Mon, 29 Jun 2020 22:31:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:31:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:31:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:31:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:31:08: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 22:31:08: Too few paired peaks (15) 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 22:31:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.05_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/dm3/SRX1490787/SRX1490787.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:31:10: 7000000 INFO @ Mon, 29 Jun 2020 22:31:10: 1000000 INFO @ Mon, 29 Jun 2020 22:31:15: 8000000 INFO @ Mon, 29 Jun 2020 22:31:15: 2000000 INFO @ Mon, 29 Jun 2020 22:31:20: 9000000 INFO @ Mon, 29 Jun 2020 22:31:20: 3000000 INFO @ Mon, 29 Jun 2020 22:31:25: 10000000 INFO @ Mon, 29 Jun 2020 22:31:25: 4000000 INFO @ Mon, 29 Jun 2020 22:31:30: 11000000 INFO @ Mon, 29 Jun 2020 22:31:30: 5000000 INFO @ Mon, 29 Jun 2020 22:31:35: 6000000 INFO @ Mon, 29 Jun 2020 22:31:35: 12000000 INFO @ Mon, 29 Jun 2020 22:31:38: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:31:38: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:31:38: #1 total tags in treatment: 12536921 INFO @ Mon, 29 Jun 2020 22:31:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:31:38: #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 22:31:38: #1 tags after filtering in treatment: 12536921 INFO @ Mon, 29 Jun 2020 22:31:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:31:38: #1 finished! INFO @ Mon, 29 Jun 2020 22:31:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:31:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:31:39: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 22:31:39: Too few paired peaks (15) 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 22:31:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.10_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/SRX1490787/SRX1490787.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:31:40: 7000000 INFO @ Mon, 29 Jun 2020 22:31:45: 8000000 INFO @ Mon, 29 Jun 2020 22:31:50: 9000000 INFO @ Mon, 29 Jun 2020 22:31:54: 10000000 INFO @ Mon, 29 Jun 2020 22:32:00: 11000000 INFO @ Mon, 29 Jun 2020 22:32:04: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:32:07: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:32:07: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:32:07: #1 total tags in treatment: 12536921 INFO @ Mon, 29 Jun 2020 22:32:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:32:07: #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 22:32:07: #1 tags after filtering in treatment: 12536921 INFO @ Mon, 29 Jun 2020 22:32:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:32:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:32:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:32:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:32:08: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 22:32:08: Too few paired peaks (15) 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 22:32:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.20_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/SRX1490787/SRX1490787.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490787/SRX1490787.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。