Job ID = 6527908 SRX = SRX3167258 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:52:14 prefetch.2.10.7: 1) Downloading 'SRR6014261'... 2020-06-29T13:52:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:57:36 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:57:36 prefetch.2.10.7: 1) 'SRR6014261' was downloaded successfully Read 33155352 spots for SRR6014261/SRR6014261.sra Written 33155352 spots for SRR6014261/SRR6014261.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: 00:11:21 33155352 reads; of these: 33155352 (100.00%) were unpaired; of these: 3763290 (11.35%) aligned 0 times 21341696 (64.37%) aligned exactly 1 time 8050366 (24.28%) aligned >1 times 88.65% overall alignment rate Time searching: 00:11:21 Overall time: 00:11:21 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 12 files... [bam_rmdupse_core] 3816577 / 29392062 = 0.1299 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 23:27:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.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 23:27:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:27:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:27:09: 1000000 INFO @ Mon, 29 Jun 2020 23:27:15: 2000000 INFO @ Mon, 29 Jun 2020 23:27:20: 3000000 INFO @ Mon, 29 Jun 2020 23:27:26: 4000000 INFO @ Mon, 29 Jun 2020 23:27:31: 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 23:27:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.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 23:27:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:27:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:27:37: 6000000 INFO @ Mon, 29 Jun 2020 23:27:40: 1000000 INFO @ Mon, 29 Jun 2020 23:27:43: 7000000 INFO @ Mon, 29 Jun 2020 23:27:47: 2000000 INFO @ Mon, 29 Jun 2020 23:27:49: 8000000 INFO @ Mon, 29 Jun 2020 23:27:54: 3000000 INFO @ Mon, 29 Jun 2020 23:27:55: 9000000 INFO @ Mon, 29 Jun 2020 23:28:01: 10000000 INFO @ Mon, 29 Jun 2020 23:28:01: 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 23:28:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.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 23:28:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:28:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:28:07: 11000000 INFO @ Mon, 29 Jun 2020 23:28:08: 5000000 INFO @ Mon, 29 Jun 2020 23:28:10: 1000000 INFO @ Mon, 29 Jun 2020 23:28:13: 12000000 INFO @ Mon, 29 Jun 2020 23:28:15: 6000000 INFO @ Mon, 29 Jun 2020 23:28:17: 2000000 INFO @ Mon, 29 Jun 2020 23:28:19: 13000000 INFO @ Mon, 29 Jun 2020 23:28:22: 7000000 INFO @ Mon, 29 Jun 2020 23:28:24: 3000000 INFO @ Mon, 29 Jun 2020 23:28:25: 14000000 INFO @ Mon, 29 Jun 2020 23:28:29: 8000000 INFO @ Mon, 29 Jun 2020 23:28:31: 15000000 INFO @ Mon, 29 Jun 2020 23:28:31: 4000000 INFO @ Mon, 29 Jun 2020 23:28:35: 9000000 INFO @ Mon, 29 Jun 2020 23:28:37: 16000000 INFO @ Mon, 29 Jun 2020 23:28:38: 5000000 INFO @ Mon, 29 Jun 2020 23:28:42: 10000000 INFO @ Mon, 29 Jun 2020 23:28:43: 17000000 INFO @ Mon, 29 Jun 2020 23:28:45: 6000000 INFO @ Mon, 29 Jun 2020 23:28:49: 18000000 INFO @ Mon, 29 Jun 2020 23:28:49: 11000000 INFO @ Mon, 29 Jun 2020 23:28:52: 7000000 INFO @ Mon, 29 Jun 2020 23:28:55: 19000000 INFO @ Mon, 29 Jun 2020 23:28:56: 12000000 INFO @ Mon, 29 Jun 2020 23:28:58: 8000000 INFO @ Mon, 29 Jun 2020 23:29:01: 20000000 INFO @ Mon, 29 Jun 2020 23:29:03: 13000000 INFO @ Mon, 29 Jun 2020 23:29:05: 9000000 INFO @ Mon, 29 Jun 2020 23:29:07: 21000000 INFO @ Mon, 29 Jun 2020 23:29:10: 14000000 INFO @ Mon, 29 Jun 2020 23:29:12: 10000000 INFO @ Mon, 29 Jun 2020 23:29:13: 22000000 INFO @ Mon, 29 Jun 2020 23:29:17: 15000000 INFO @ Mon, 29 Jun 2020 23:29:19: 23000000 INFO @ Mon, 29 Jun 2020 23:29:19: 11000000 INFO @ Mon, 29 Jun 2020 23:29:24: 16000000 INFO @ Mon, 29 Jun 2020 23:29:25: 24000000 INFO @ Mon, 29 Jun 2020 23:29:26: 12000000 INFO @ Mon, 29 Jun 2020 23:29:31: 25000000 INFO @ Mon, 29 Jun 2020 23:29:31: 17000000 INFO @ Mon, 29 Jun 2020 23:29:33: 13000000 INFO @ Mon, 29 Jun 2020 23:29:34: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:29:34: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:29:34: #1 total tags in treatment: 25575485 INFO @ Mon, 29 Jun 2020 23:29:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:29:34: #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 23:29:35: #1 tags after filtering in treatment: 25575485 INFO @ Mon, 29 Jun 2020 23:29:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:29:35: #1 finished! INFO @ Mon, 29 Jun 2020 23:29:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:29:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:29:37: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 23:29:37: Too few paired peaks (96) 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 23:29:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.05_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/SRX3167258/SRX3167258.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:29:38: 18000000 INFO @ Mon, 29 Jun 2020 23:29:39: 14000000 INFO @ Mon, 29 Jun 2020 23:29:44: 19000000 INFO @ Mon, 29 Jun 2020 23:29:46: 15000000 INFO @ Mon, 29 Jun 2020 23:29:51: 20000000 INFO @ Mon, 29 Jun 2020 23:29:53: 16000000 INFO @ Mon, 29 Jun 2020 23:29:58: 21000000 INFO @ Mon, 29 Jun 2020 23:30:00: 17000000 INFO @ Mon, 29 Jun 2020 23:30:05: 22000000 INFO @ Mon, 29 Jun 2020 23:30:07: 18000000 INFO @ Mon, 29 Jun 2020 23:30:11: 23000000 INFO @ Mon, 29 Jun 2020 23:30:14: 19000000 INFO @ Mon, 29 Jun 2020 23:30:18: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:30:21: 20000000 INFO @ Mon, 29 Jun 2020 23:30:25: 25000000 INFO @ Mon, 29 Jun 2020 23:30:28: 21000000 INFO @ Mon, 29 Jun 2020 23:30:29: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:30:29: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:30:29: #1 total tags in treatment: 25575485 INFO @ Mon, 29 Jun 2020 23:30:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:29: #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 23:30:29: #1 tags after filtering in treatment: 25575485 INFO @ Mon, 29 Jun 2020 23:30:29: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:29: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:29: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:30:31: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 23:30:31: Too few paired peaks (96) 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 23:30:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.10_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/SRX3167258/SRX3167258.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:30:34: 22000000 INFO @ Mon, 29 Jun 2020 23:30:41: 23000000 INFO @ Mon, 29 Jun 2020 23:30:47: 24000000 INFO @ Mon, 29 Jun 2020 23:30:54: 25000000 INFO @ Mon, 29 Jun 2020 23:30:58: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:30:58: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:30:58: #1 total tags in treatment: 25575485 INFO @ Mon, 29 Jun 2020 23:30:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:58: #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 23:30:58: #1 tags after filtering in treatment: 25575485 INFO @ Mon, 29 Jun 2020 23:30:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:58: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:31:00: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 23:31:00: Too few paired peaks (96) 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 23:31:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.20_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/SRX3167258/SRX3167258.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167258/SRX3167258.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。