Job ID = 6528256 SRX = SRX495207 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:37:08 prefetch.2.10.7: 1) Downloading 'SRR1198712'... 2020-06-29T14:37:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:39:28 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:39:28 prefetch.2.10.7: 'SRR1198712' is valid 2020-06-29T14:39:28 prefetch.2.10.7: 1) 'SRR1198712' was downloaded successfully Read 14058991 spots for SRR1198712/SRR1198712.sra Written 14058991 spots for SRR1198712/SRR1198712.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: 00:04:15 14058991 reads; of these: 14058991 (100.00%) were unpaired; of these: 388267 (2.76%) aligned 0 times 9810921 (69.78%) aligned exactly 1 time 3859803 (27.45%) aligned >1 times 97.24% overall alignment rate Time searching: 00:04:15 Overall time: 00:04:15 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] 2384784 / 13670724 = 0.1744 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 23:50:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.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 23:50:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:41: 1000000 INFO @ Mon, 29 Jun 2020 23:50:45: 2000000 INFO @ Mon, 29 Jun 2020 23:50:50: 3000000 INFO @ Mon, 29 Jun 2020 23:50:55: 4000000 INFO @ Mon, 29 Jun 2020 23:50:59: 5000000 INFO @ Mon, 29 Jun 2020 23:51:04: 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 23:51:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.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 23:51:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:51:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:09: 7000000 INFO @ Mon, 29 Jun 2020 23:51:12: 1000000 INFO @ Mon, 29 Jun 2020 23:51:14: 8000000 INFO @ Mon, 29 Jun 2020 23:51:17: 2000000 INFO @ Mon, 29 Jun 2020 23:51:19: 9000000 INFO @ Mon, 29 Jun 2020 23:51:23: 3000000 INFO @ Mon, 29 Jun 2020 23:51:24: 10000000 INFO @ Mon, 29 Jun 2020 23:51:28: 4000000 INFO @ Mon, 29 Jun 2020 23:51:29: 11000000 INFO @ Mon, 29 Jun 2020 23:51:30: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:51:30: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:51:30: #1 total tags in treatment: 11285940 INFO @ Mon, 29 Jun 2020 23:51:30: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:51:30: #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 23:51:30: #1 tags after filtering in treatment: 11285940 INFO @ Mon, 29 Jun 2020 23:51:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:51:30: #1 finished! INFO @ Mon, 29 Jun 2020 23:51:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:51:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:51:31: #2 number of paired peaks: 8 WARNING @ Mon, 29 Jun 2020 23:51:31: Too few paired peaks (8) 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 23:51:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:51:34: 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 23:51:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.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 23:51:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:51:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:40: 6000000 INFO @ Mon, 29 Jun 2020 23:51:42: 1000000 INFO @ Mon, 29 Jun 2020 23:51:45: 7000000 INFO @ Mon, 29 Jun 2020 23:51:47: 2000000 INFO @ Mon, 29 Jun 2020 23:51:51: 8000000 INFO @ Mon, 29 Jun 2020 23:51:53: 3000000 INFO @ Mon, 29 Jun 2020 23:51:57: 9000000 INFO @ Mon, 29 Jun 2020 23:51:58: 4000000 INFO @ Mon, 29 Jun 2020 23:52:02: 10000000 INFO @ Mon, 29 Jun 2020 23:52:04: 5000000 INFO @ Mon, 29 Jun 2020 23:52:08: 11000000 INFO @ Mon, 29 Jun 2020 23:52:09: 6000000 INFO @ Mon, 29 Jun 2020 23:52:10: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:52:10: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:52:10: #1 total tags in treatment: 11285940 INFO @ Mon, 29 Jun 2020 23:52:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:52:10: #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 23:52:10: #1 tags after filtering in treatment: 11285940 INFO @ Mon, 29 Jun 2020 23:52:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:52:10: #1 finished! INFO @ Mon, 29 Jun 2020 23:52:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:52:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:52:10: #2 number of paired peaks: 8 WARNING @ Mon, 29 Jun 2020 23:52:10: Too few paired peaks (8) 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 23:52:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.10_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/SRX495207/SRX495207.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:52:15: 7000000 INFO @ Mon, 29 Jun 2020 23:52:21: 8000000 INFO @ Mon, 29 Jun 2020 23:52:26: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:52:32: 10000000 INFO @ Mon, 29 Jun 2020 23:52:37: 11000000 INFO @ Mon, 29 Jun 2020 23:52:38: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:52:38: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:52:38: #1 total tags in treatment: 11285940 INFO @ Mon, 29 Jun 2020 23:52:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:52:38: #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 23:52:39: #1 tags after filtering in treatment: 11285940 INFO @ Mon, 29 Jun 2020 23:52:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:52:39: #1 finished! INFO @ Mon, 29 Jun 2020 23:52:39: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:52:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:52:39: #2 number of paired peaks: 8 WARNING @ Mon, 29 Jun 2020 23:52:39: Too few paired peaks (8) 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 23:52:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.20_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/SRX495207/SRX495207.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495207/SRX495207.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。