Job ID = 6527497 SRX = SRX033319 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:57:57 prefetch.2.10.7: 1) Downloading 'SRR080714'... 2020-06-29T12:57:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:59:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:59:01 prefetch.2.10.7: 'SRR080714' is valid 2020-06-29T12:59:01 prefetch.2.10.7: 1) 'SRR080714' was downloaded successfully Read 12541820 spots for SRR080714/SRR080714.sra Written 12541820 spots for SRR080714/SRR080714.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: 00:03:40 12541820 reads; of these: 12541820 (100.00%) were unpaired; of these: 568257 (4.53%) aligned 0 times 8945866 (71.33%) aligned exactly 1 time 3027697 (24.14%) aligned >1 times 95.47% overall alignment rate Time searching: 00:03:40 Overall time: 00:03:40 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] 1707042 / 11973563 = 0.1426 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 22:08:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.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 22:08:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:08:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:08:19: 1000000 INFO @ Mon, 29 Jun 2020 22:08:24: 2000000 INFO @ Mon, 29 Jun 2020 22:08:28: 3000000 INFO @ Mon, 29 Jun 2020 22:08:33: 4000000 INFO @ Mon, 29 Jun 2020 22:08:37: 5000000 INFO @ Mon, 29 Jun 2020 22:08:42: 6000000 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 22:08:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.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 22:08:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:08:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:08:46: 7000000 INFO @ Mon, 29 Jun 2020 22:08:49: 1000000 INFO @ Mon, 29 Jun 2020 22:08:51: 8000000 INFO @ Mon, 29 Jun 2020 22:08:54: 2000000 INFO @ Mon, 29 Jun 2020 22:08:55: 9000000 INFO @ Mon, 29 Jun 2020 22:08:59: 3000000 INFO @ Mon, 29 Jun 2020 22:09:00: 10000000 INFO @ Mon, 29 Jun 2020 22:09:01: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:09:01: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:09:01: #1 total tags in treatment: 10266521 INFO @ Mon, 29 Jun 2020 22:09:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:09:01: #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 22:09:01: #1 tags after filtering in treatment: 10266521 INFO @ Mon, 29 Jun 2020 22:09:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:09:01: #1 finished! INFO @ Mon, 29 Jun 2020 22:09:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:09:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:09:02: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 22:09:02: Too few paired peaks (25) 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 22:09:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.05_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/SRX033319/SRX033319.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:09:03: 4000000 INFO @ Mon, 29 Jun 2020 22:09:08: 5000000 INFO @ Mon, 29 Jun 2020 22:09:12: 6000000 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 22:09:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.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 22:09:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:09:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:09:16: 7000000 INFO @ Mon, 29 Jun 2020 22:09:20: 1000000 INFO @ Mon, 29 Jun 2020 22:09:21: 8000000 INFO @ Mon, 29 Jun 2020 22:09:26: 2000000 INFO @ Mon, 29 Jun 2020 22:09:26: 9000000 INFO @ Mon, 29 Jun 2020 22:09:30: 10000000 INFO @ Mon, 29 Jun 2020 22:09:31: 3000000 INFO @ Mon, 29 Jun 2020 22:09:32: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:09:32: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:09:32: #1 total tags in treatment: 10266521 INFO @ Mon, 29 Jun 2020 22:09:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:09:32: #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 22:09:32: #1 tags after filtering in treatment: 10266521 INFO @ Mon, 29 Jun 2020 22:09:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:09:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:09:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:09:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:09:32: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 22:09:32: Too few paired peaks (25) 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 22:09:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.10_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/SRX033319/SRX033319.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:09:36: 4000000 INFO @ Mon, 29 Jun 2020 22:09:41: 5000000 INFO @ Mon, 29 Jun 2020 22:09:46: 6000000 INFO @ Mon, 29 Jun 2020 22:09:51: 7000000 INFO @ Mon, 29 Jun 2020 22:09:56: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:10:01: 9000000 INFO @ Mon, 29 Jun 2020 22:10:06: 10000000 INFO @ Mon, 29 Jun 2020 22:10:08: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:10:08: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:10:08: #1 total tags in treatment: 10266521 INFO @ Mon, 29 Jun 2020 22:10:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:10:08: #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 22:10:08: #1 tags after filtering in treatment: 10266521 INFO @ Mon, 29 Jun 2020 22:10:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:10:08: #1 finished! INFO @ Mon, 29 Jun 2020 22:10:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:10:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:10:09: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 22:10:09: Too few paired peaks (25) 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 22:10:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.20_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/SRX033319/SRX033319.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033319/SRX033319.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。