Job ID = 6528263 SRX = SRX495224 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:32:06 prefetch.2.10.7: 1) Downloading 'SRR1198729'... 2020-06-29T14:32:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:35:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:35:00 prefetch.2.10.7: 1) 'SRR1198729' was downloaded successfully Read 17978113 spots for SRR1198729/SRR1198729.sra Written 17978113 spots for SRR1198729/SRR1198729.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: 00:06:03 17978113 reads; of these: 17978113 (100.00%) were unpaired; of these: 935571 (5.20%) aligned 0 times 11237771 (62.51%) aligned exactly 1 time 5804771 (32.29%) aligned >1 times 94.80% overall alignment rate Time searching: 00:06:03 Overall time: 00:06:03 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] 3820730 / 17042542 = 0.2242 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 23:50:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.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 23:50:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:14: 1000000 INFO @ Mon, 29 Jun 2020 23:50:20: 2000000 INFO @ Mon, 29 Jun 2020 23:50:27: 3000000 INFO @ Mon, 29 Jun 2020 23:50:33: 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 @ Mon, 29 Jun 2020 23:50:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.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 23:50:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:39: 5000000 INFO @ Mon, 29 Jun 2020 23:50:43: 1000000 INFO @ Mon, 29 Jun 2020 23:50:46: 6000000 INFO @ Mon, 29 Jun 2020 23:50:49: 2000000 INFO @ Mon, 29 Jun 2020 23:50:52: 7000000 INFO @ Mon, 29 Jun 2020 23:50:55: 3000000 INFO @ Mon, 29 Jun 2020 23:50:59: 8000000 INFO @ Mon, 29 Jun 2020 23:51:02: 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 23:51:05: 9000000 INFO @ Mon, 29 Jun 2020 23:51:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.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 23:51:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:51:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:08: 5000000 INFO @ Mon, 29 Jun 2020 23:51:12: 10000000 INFO @ Mon, 29 Jun 2020 23:51:14: 6000000 INFO @ Mon, 29 Jun 2020 23:51:14: 1000000 INFO @ Mon, 29 Jun 2020 23:51:18: 11000000 INFO @ Mon, 29 Jun 2020 23:51:20: 7000000 INFO @ Mon, 29 Jun 2020 23:51:21: 2000000 INFO @ Mon, 29 Jun 2020 23:51:25: 12000000 INFO @ Mon, 29 Jun 2020 23:51:26: 8000000 INFO @ Mon, 29 Jun 2020 23:51:28: 3000000 INFO @ Mon, 29 Jun 2020 23:51:32: 13000000 INFO @ Mon, 29 Jun 2020 23:51:32: 9000000 INFO @ Mon, 29 Jun 2020 23:51:33: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:51:33: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:51:33: #1 total tags in treatment: 13221812 INFO @ Mon, 29 Jun 2020 23:51:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:51:33: #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 23:51:33: #1 tags after filtering in treatment: 13221812 INFO @ Mon, 29 Jun 2020 23:51:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:51:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:51:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:51:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:51:34: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 23:51:34: Too few paired peaks (30) 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 23:51:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.05_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/SRX495224/SRX495224.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:51:35: 4000000 INFO @ Mon, 29 Jun 2020 23:51:38: 10000000 INFO @ Mon, 29 Jun 2020 23:51:42: 5000000 INFO @ Mon, 29 Jun 2020 23:51:44: 11000000 INFO @ Mon, 29 Jun 2020 23:51:49: 6000000 INFO @ Mon, 29 Jun 2020 23:51:50: 12000000 INFO @ Mon, 29 Jun 2020 23:51:56: 13000000 INFO @ Mon, 29 Jun 2020 23:51:56: 7000000 INFO @ Mon, 29 Jun 2020 23:51:57: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:51:57: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:51:57: #1 total tags in treatment: 13221812 INFO @ Mon, 29 Jun 2020 23:51:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:51:57: #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 23:51:57: #1 tags after filtering in treatment: 13221812 INFO @ Mon, 29 Jun 2020 23:51:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:51:57: #1 finished! INFO @ Mon, 29 Jun 2020 23:51:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:51:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:51:58: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 23:51:58: Too few paired peaks (30) 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 23:51:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.10_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/SRX495224/SRX495224.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:52:02: 8000000 INFO @ Mon, 29 Jun 2020 23:52:09: 9000000 INFO @ Mon, 29 Jun 2020 23:52:15: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:52:22: 11000000 INFO @ Mon, 29 Jun 2020 23:52:28: 12000000 INFO @ Mon, 29 Jun 2020 23:52:35: 13000000 INFO @ Mon, 29 Jun 2020 23:52:37: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:52:37: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:52:37: #1 total tags in treatment: 13221812 INFO @ Mon, 29 Jun 2020 23:52:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:52:37: #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 23:52:37: #1 tags after filtering in treatment: 13221812 INFO @ Mon, 29 Jun 2020 23:52:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:52:37: #1 finished! INFO @ Mon, 29 Jun 2020 23:52:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:52:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:52:38: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 23:52:38: Too few paired peaks (30) 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 23:52:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.20_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/SRX495224/SRX495224.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495224/SRX495224.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。