Job ID = 6527510 SRX = SRX041393 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:56:23 prefetch.2.10.7: 1) Downloading 'SRR099126'... 2020-06-29T12:56:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:58:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:58:03 prefetch.2.10.7: 1) 'SRR099126' was downloaded successfully Read 27341616 spots for SRR099126/SRR099126.sra Written 27341616 spots for SRR099126/SRR099126.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: 00:06:14 27341616 reads; of these: 27341616 (100.00%) were unpaired; of these: 694780 (2.54%) aligned 0 times 21650058 (79.18%) aligned exactly 1 time 4996778 (18.28%) aligned >1 times 97.46% overall alignment rate Time searching: 00:06:14 Overall time: 00:06:14 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] 2916978 / 26646836 = 0.1095 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 22:17:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.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 22:17:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:17:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:17:23: 1000000 INFO @ Mon, 29 Jun 2020 22:17:28: 2000000 INFO @ Mon, 29 Jun 2020 22:17:33: 3000000 INFO @ Mon, 29 Jun 2020 22:17:38: 4000000 INFO @ Mon, 29 Jun 2020 22:17:44: 5000000 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 22:17:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.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 22:17:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:17:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:17:49: 6000000 INFO @ Mon, 29 Jun 2020 22:17:52: 1000000 INFO @ Mon, 29 Jun 2020 22:17:54: 7000000 INFO @ Mon, 29 Jun 2020 22:17:57: 2000000 INFO @ Mon, 29 Jun 2020 22:18:00: 8000000 INFO @ Mon, 29 Jun 2020 22:18:02: 3000000 INFO @ Mon, 29 Jun 2020 22:18:05: 9000000 INFO @ Mon, 29 Jun 2020 22:18:08: 4000000 INFO @ Mon, 29 Jun 2020 22:18:10: 10000000 INFO @ Mon, 29 Jun 2020 22:18:13: 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 22:18:16: 11000000 INFO @ Mon, 29 Jun 2020 22:18:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.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 22:18:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:18:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:18:18: 6000000 INFO @ Mon, 29 Jun 2020 22:18:21: 12000000 INFO @ Mon, 29 Jun 2020 22:18:22: 1000000 INFO @ Mon, 29 Jun 2020 22:18:23: 7000000 INFO @ Mon, 29 Jun 2020 22:18:27: 13000000 INFO @ Mon, 29 Jun 2020 22:18:27: 2000000 INFO @ Mon, 29 Jun 2020 22:18:28: 8000000 INFO @ Mon, 29 Jun 2020 22:18:33: 14000000 INFO @ Mon, 29 Jun 2020 22:18:33: 3000000 INFO @ Mon, 29 Jun 2020 22:18:34: 9000000 INFO @ Mon, 29 Jun 2020 22:18:38: 4000000 INFO @ Mon, 29 Jun 2020 22:18:38: 15000000 INFO @ Mon, 29 Jun 2020 22:18:39: 10000000 INFO @ Mon, 29 Jun 2020 22:18:43: 5000000 INFO @ Mon, 29 Jun 2020 22:18:44: 16000000 INFO @ Mon, 29 Jun 2020 22:18:44: 11000000 INFO @ Mon, 29 Jun 2020 22:18:48: 6000000 INFO @ Mon, 29 Jun 2020 22:18:49: 12000000 INFO @ Mon, 29 Jun 2020 22:18:49: 17000000 INFO @ Mon, 29 Jun 2020 22:18:53: 7000000 INFO @ Mon, 29 Jun 2020 22:18:54: 13000000 INFO @ Mon, 29 Jun 2020 22:18:55: 18000000 INFO @ Mon, 29 Jun 2020 22:18:58: 8000000 INFO @ Mon, 29 Jun 2020 22:18:59: 14000000 INFO @ Mon, 29 Jun 2020 22:19:00: 19000000 INFO @ Mon, 29 Jun 2020 22:19:03: 9000000 INFO @ Mon, 29 Jun 2020 22:19:04: 15000000 INFO @ Mon, 29 Jun 2020 22:19:06: 20000000 INFO @ Mon, 29 Jun 2020 22:19:08: 10000000 INFO @ Mon, 29 Jun 2020 22:19:10: 16000000 INFO @ Mon, 29 Jun 2020 22:19:12: 21000000 INFO @ Mon, 29 Jun 2020 22:19:13: 11000000 INFO @ Mon, 29 Jun 2020 22:19:15: 17000000 INFO @ Mon, 29 Jun 2020 22:19:18: 22000000 INFO @ Mon, 29 Jun 2020 22:19:18: 12000000 INFO @ Mon, 29 Jun 2020 22:19:20: 18000000 INFO @ Mon, 29 Jun 2020 22:19:23: 13000000 INFO @ Mon, 29 Jun 2020 22:19:23: 23000000 INFO @ Mon, 29 Jun 2020 22:19:25: 19000000 INFO @ Mon, 29 Jun 2020 22:19:28: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:19:28: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:19:28: #1 total tags in treatment: 23729858 INFO @ Mon, 29 Jun 2020 22:19:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:28: #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 22:19:28: 14000000 INFO @ Mon, 29 Jun 2020 22:19:28: #1 tags after filtering in treatment: 23729858 INFO @ Mon, 29 Jun 2020 22:19:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:28: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:30: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 22:19:30: 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 @ Mon, 29 Jun 2020 22:19:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.05_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/SRX041393/SRX041393.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:19:30: 20000000 INFO @ Mon, 29 Jun 2020 22:19:33: 15000000 INFO @ Mon, 29 Jun 2020 22:19:35: 21000000 INFO @ Mon, 29 Jun 2020 22:19:38: 16000000 INFO @ Mon, 29 Jun 2020 22:19:40: 22000000 INFO @ Mon, 29 Jun 2020 22:19:43: 17000000 INFO @ Mon, 29 Jun 2020 22:19:45: 23000000 INFO @ Mon, 29 Jun 2020 22:19:48: 18000000 INFO @ Mon, 29 Jun 2020 22:19:49: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:19:49: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:19:49: #1 total tags in treatment: 23729858 INFO @ Mon, 29 Jun 2020 22:19:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:49: #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 22:19:49: #1 tags after filtering in treatment: 23729858 INFO @ Mon, 29 Jun 2020 22:19:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:49: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:49: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:51: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 22:19:51: 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 @ Mon, 29 Jun 2020 22:19:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.10_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/SRX041393/SRX041393.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:19:53: 19000000 INFO @ Mon, 29 Jun 2020 22:19:57: 20000000 INFO @ Mon, 29 Jun 2020 22:20:02: 21000000 INFO @ Mon, 29 Jun 2020 22:20:07: 22000000 INFO @ Mon, 29 Jun 2020 22:20:11: 23000000 INFO @ Mon, 29 Jun 2020 22:20:15: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:20:15: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:20:15: #1 total tags in treatment: 23729858 INFO @ Mon, 29 Jun 2020 22:20:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:20:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 INFO @ Mon, 29 Jun 2020 22:20:15: #1 tags after filtering in treatment: 23729858 INFO @ Mon, 29 Jun 2020 22:20:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:20:15: #1 finished! INFO @ Mon, 29 Jun 2020 22:20:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:20:15: #2 looking for paired plus/minus strand peaks... BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:20:17: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 22:20:17: 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 @ Mon, 29 Jun 2020 22:20:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.20_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/SRX041393/SRX041393.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041393/SRX041393.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。