Job ID = 6498708 SRX = SRX716776 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T23:52:06 prefetch.2.10.7: 1) Downloading 'SRR1592435'... 2020-06-25T23:52:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T23:53:14 prefetch.2.10.7: HTTPS download succeed 2020-06-25T23:53:15 prefetch.2.10.7: 'SRR1592435' is valid 2020-06-25T23:53:15 prefetch.2.10.7: 1) 'SRR1592435' was downloaded successfully Read 12249441 spots for SRR1592435/SRR1592435.sra Written 12249441 spots for SRR1592435/SRR1592435.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: 00:03:10 12249441 reads; of these: 12249441 (100.00%) were unpaired; of these: 396220 (3.23%) aligned 0 times 10475376 (85.52%) aligned exactly 1 time 1377845 (11.25%) aligned >1 times 96.77% overall alignment rate Time searching: 00:03:10 Overall time: 00:03:10 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] 1999100 / 11853221 = 0.1687 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 @ Fri, 26 Jun 2020 09:00:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.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 @ Fri, 26 Jun 2020 09:00:37: #1 read tag files... INFO @ Fri, 26 Jun 2020 09:00:37: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 09:00:42: 1000000 INFO @ Fri, 26 Jun 2020 09:00:48: 2000000 INFO @ Fri, 26 Jun 2020 09:00:54: 3000000 INFO @ Fri, 26 Jun 2020 09:01:00: 4000000 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 @ Fri, 26 Jun 2020 09:01:06: 5000000 INFO @ Fri, 26 Jun 2020 09:01:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.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 @ Fri, 26 Jun 2020 09:01:06: #1 read tag files... INFO @ Fri, 26 Jun 2020 09:01:06: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 09:01:13: 6000000 INFO @ Fri, 26 Jun 2020 09:01:13: 1000000 INFO @ Fri, 26 Jun 2020 09:01:19: 7000000 INFO @ Fri, 26 Jun 2020 09:01:20: 2000000 INFO @ Fri, 26 Jun 2020 09:01:26: 8000000 INFO @ Fri, 26 Jun 2020 09:01:27: 3000000 INFO @ Fri, 26 Jun 2020 09:01:32: 9000000 INFO @ Fri, 26 Jun 2020 09:01:34: 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 @ Fri, 26 Jun 2020 09:01:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.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 @ Fri, 26 Jun 2020 09:01:37: #1 read tag files... INFO @ Fri, 26 Jun 2020 09:01:37: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 09:01:38: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 09:01:38: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 09:01:38: #1 total tags in treatment: 9854121 INFO @ Fri, 26 Jun 2020 09:01:38: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 09:01:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 09:01:38: #1 tags after filtering in treatment: 9854121 INFO @ Fri, 26 Jun 2020 09:01:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 09:01:38: #1 finished! INFO @ Fri, 26 Jun 2020 09:01:38: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 09:01:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 09:01:38: #2 number of paired peaks: 19 WARNING @ Fri, 26 Jun 2020 09:01:38: Too few paired peaks (19) 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 @ Fri, 26 Jun 2020 09:01:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.05_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/SRX716776/SRX716776.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 09:01:41: 5000000 INFO @ Fri, 26 Jun 2020 09:01:43: 1000000 INFO @ Fri, 26 Jun 2020 09:01:48: 6000000 INFO @ Fri, 26 Jun 2020 09:01:49: 2000000 INFO @ Fri, 26 Jun 2020 09:01:56: 3000000 INFO @ Fri, 26 Jun 2020 09:01:56: 7000000 INFO @ Fri, 26 Jun 2020 09:02:02: 4000000 INFO @ Fri, 26 Jun 2020 09:02:03: 8000000 INFO @ Fri, 26 Jun 2020 09:02:08: 5000000 INFO @ Fri, 26 Jun 2020 09:02:10: 9000000 INFO @ Fri, 26 Jun 2020 09:02:14: 6000000 INFO @ Fri, 26 Jun 2020 09:02:16: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 09:02:16: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 09:02:16: #1 total tags in treatment: 9854121 INFO @ Fri, 26 Jun 2020 09:02:16: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 09:02:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 09:02:17: #1 tags after filtering in treatment: 9854121 INFO @ Fri, 26 Jun 2020 09:02:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 09:02:17: #1 finished! INFO @ Fri, 26 Jun 2020 09:02:17: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 09:02:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 09:02:17: #2 number of paired peaks: 19 WARNING @ Fri, 26 Jun 2020 09:02:17: Too few paired peaks (19) 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 @ Fri, 26 Jun 2020 09:02:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.10_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/SRX716776/SRX716776.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 09:02:20: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 09:02:26: 8000000 INFO @ Fri, 26 Jun 2020 09:02:32: 9000000 INFO @ Fri, 26 Jun 2020 09:02:37: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 09:02:37: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 09:02:37: #1 total tags in treatment: 9854121 INFO @ Fri, 26 Jun 2020 09:02:37: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 09:02:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 09:02:37: #1 tags after filtering in treatment: 9854121 INFO @ Fri, 26 Jun 2020 09:02:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 09:02:37: #1 finished! INFO @ Fri, 26 Jun 2020 09:02:37: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 09:02:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 09:02:38: #2 number of paired peaks: 19 WARNING @ Fri, 26 Jun 2020 09:02:38: Too few paired peaks (19) 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 @ Fri, 26 Jun 2020 09:02:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.20_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/SRX716776/SRX716776.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX716776/SRX716776.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。