Job ID = 6528387 SRX = SRX5661473 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:18:47 prefetch.2.10.7: 1) Downloading 'SRR8874480'... 2020-06-29T15:18:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:20:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:20:31 prefetch.2.10.7: 'SRR8874480' is valid 2020-06-29T15:20:31 prefetch.2.10.7: 1) 'SRR8874480' was downloaded successfully Read 9228420 spots for SRR8874480/SRR8874480.sra Written 9228420 spots for SRR8874480/SRR8874480.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 9228420 reads; of these: 9228420 (100.00%) were unpaired; of these: 1817697 (19.70%) aligned 0 times 4439425 (48.11%) aligned exactly 1 time 2971298 (32.20%) aligned >1 times 80.30% 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] 2374509 / 7410723 = 0.3204 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 @ Tue, 30 Jun 2020 00:30:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.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 @ Tue, 30 Jun 2020 00:30:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:30:32: 1000000 INFO @ Tue, 30 Jun 2020 00:30:39: 2000000 INFO @ Tue, 30 Jun 2020 00:30:46: 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 @ Tue, 30 Jun 2020 00:30:54: 4000000 INFO @ Tue, 30 Jun 2020 00:30:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.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 @ Tue, 30 Jun 2020 00:30:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:31:01: 5000000 INFO @ Tue, 30 Jun 2020 00:31:01: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:31:01: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:31:01: #1 total tags in treatment: 5036214 INFO @ Tue, 30 Jun 2020 00:31:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:31:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:31:01: #1 tags after filtering in treatment: 5036214 INFO @ Tue, 30 Jun 2020 00:31:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:31:01: #1 finished! INFO @ Tue, 30 Jun 2020 00:31:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:31:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:31:02: #2 number of paired peaks: 59 WARNING @ Tue, 30 Jun 2020 00:31:02: Too few paired peaks (59) 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 @ Tue, 30 Jun 2020 00:31:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.05_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/SRX5661473/SRX5661473.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:31:03: 1000000 INFO @ Tue, 30 Jun 2020 00:31:10: 2000000 INFO @ Tue, 30 Jun 2020 00:31:18: 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 @ Tue, 30 Jun 2020 00:31:25: 4000000 INFO @ Tue, 30 Jun 2020 00:31:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.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 @ Tue, 30 Jun 2020 00:31:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:31:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:31:33: 5000000 INFO @ Tue, 30 Jun 2020 00:31:33: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:31:33: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:31:33: #1 total tags in treatment: 5036214 INFO @ Tue, 30 Jun 2020 00:31:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:31:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:31:33: #1 tags after filtering in treatment: 5036214 INFO @ Tue, 30 Jun 2020 00:31:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:31:33: #1 finished! INFO @ Tue, 30 Jun 2020 00:31:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:31:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:31:33: 1000000 INFO @ Tue, 30 Jun 2020 00:31:33: #2 number of paired peaks: 59 WARNING @ Tue, 30 Jun 2020 00:31:33: Too few paired peaks (59) 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 @ Tue, 30 Jun 2020 00:31:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.10_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/SRX5661473/SRX5661473.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:31:41: 2000000 INFO @ Tue, 30 Jun 2020 00:31:49: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:31:56: 4000000 INFO @ Tue, 30 Jun 2020 00:32:03: 5000000 INFO @ Tue, 30 Jun 2020 00:32:03: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:32:03: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:32:03: #1 total tags in treatment: 5036214 INFO @ Tue, 30 Jun 2020 00:32:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:32:03: #1 tags after filtering in treatment: 5036214 INFO @ Tue, 30 Jun 2020 00:32:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:03: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:04: #2 number of paired peaks: 59 WARNING @ Tue, 30 Jun 2020 00:32:04: Too few paired peaks (59) 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 @ Tue, 30 Jun 2020 00:32:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.20_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/SRX5661473/SRX5661473.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661473/SRX5661473.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。