Job ID = 6527970 SRX = SRX3511956 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:11:35 prefetch.2.10.7: 1) Downloading 'SRR6418941'... 2020-06-29T14:11:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:12:38 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:12:39 prefetch.2.10.7: 'SRR6418941' is valid 2020-06-29T14:12:39 prefetch.2.10.7: 1) 'SRR6418941' was downloaded successfully 2020-06-29T14:12:39 prefetch.2.10.7: 'SRR6418941' has 0 unresolved dependencies Read 6338235 spots for SRR6418941/SRR6418941.sra Written 6338235 spots for SRR6418941/SRR6418941.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: 00:03:57 6338235 reads; of these: 6338235 (100.00%) were unpaired; of these: 609304 (9.61%) aligned 0 times 4043056 (63.79%) aligned exactly 1 time 1685875 (26.60%) aligned >1 times 90.39% overall alignment rate Time searching: 00:03:57 Overall time: 00:03:57 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_rmdupse_core] 568525 / 5728931 = 0.0992 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 23:22:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.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 23:22:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:39: 1000000 INFO @ Mon, 29 Jun 2020 23:22:47: 2000000 INFO @ Mon, 29 Jun 2020 23:22:54: 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 @ Mon, 29 Jun 2020 23:23:00: 4000000 INFO @ Mon, 29 Jun 2020 23:23:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.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 23:23:02: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:23:02: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:23:08: 5000000 INFO @ Mon, 29 Jun 2020 23:23:09: #1 tag size is determined as 91 bps INFO @ Mon, 29 Jun 2020 23:23:09: #1 tag size = 91 INFO @ Mon, 29 Jun 2020 23:23:09: #1 total tags in treatment: 5160406 INFO @ Mon, 29 Jun 2020 23:23:09: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:09: #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 23:23:09: #1 tags after filtering in treatment: 5160406 INFO @ Mon, 29 Jun 2020 23:23:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:09: #2 number of paired peaks: 72 WARNING @ Mon, 29 Jun 2020 23:23:09: Too few paired peaks (72) 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 23:23:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.05_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/SRX3511956/SRX3511956.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:10: 1000000 INFO @ Mon, 29 Jun 2020 23:23:17: 2000000 INFO @ Mon, 29 Jun 2020 23:23:23: 3000000 INFO @ Mon, 29 Jun 2020 23:23:30: 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 @ Mon, 29 Jun 2020 23:23:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.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 23:23:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:23:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:23:37: 5000000 INFO @ Mon, 29 Jun 2020 23:23:38: #1 tag size is determined as 91 bps INFO @ Mon, 29 Jun 2020 23:23:38: #1 tag size = 91 INFO @ Mon, 29 Jun 2020 23:23:38: #1 total tags in treatment: 5160406 INFO @ Mon, 29 Jun 2020 23:23:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:38: #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 23:23:38: #1 tags after filtering in treatment: 5160406 INFO @ Mon, 29 Jun 2020 23:23:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:38: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:38: #2 number of paired peaks: 72 WARNING @ Mon, 29 Jun 2020 23:23:38: Too few paired peaks (72) 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 23:23:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.10_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/SRX3511956/SRX3511956.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:39: 1000000 INFO @ Mon, 29 Jun 2020 23:23:46: 2000000 INFO @ Mon, 29 Jun 2020 23:23:53: 3000000 INFO @ Mon, 29 Jun 2020 23:24:00: 4000000 INFO @ Mon, 29 Jun 2020 23:24:07: 5000000 INFO @ Mon, 29 Jun 2020 23:24:08: #1 tag size is determined as 91 bps INFO @ Mon, 29 Jun 2020 23:24:08: #1 tag size = 91 INFO @ Mon, 29 Jun 2020 23:24:08: #1 total tags in treatment: 5160406 INFO @ Mon, 29 Jun 2020 23:24:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:08: #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 23:24:09: #1 tags after filtering in treatment: 5160406 INFO @ Mon, 29 Jun 2020 23:24:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:09: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:24:09: #2 number of paired peaks: 72 WARNING @ Mon, 29 Jun 2020 23:24:09: Too few paired peaks (72) 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 23:24:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.20_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/dm3/SRX3511956/SRX3511956.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511956/SRX3511956.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。