Job ID = 6527487 SRX = SRX032112 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:40:25 prefetch.2.10.7: 1) Downloading 'SRR073930'... 2020-06-29T12:40:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:10 prefetch.2.10.7: 'SRR073930' is valid 2020-06-29T12:42:10 prefetch.2.10.7: 1) 'SRR073930' was downloaded successfully Read 22987773 spots for SRR073930/SRR073930.sra Written 22987773 spots for SRR073930/SRR073930.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: 00:00:01 Multiseed full-index search: 00:06:11 22987773 reads; of these: 22987773 (100.00%) were unpaired; of these: 279260 (1.21%) aligned 0 times 18387004 (79.99%) aligned exactly 1 time 4321509 (18.80%) aligned >1 times 98.79% overall alignment rate Time searching: 00:06:12 Overall time: 00:06:12 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] 3331782 / 22708513 = 0.1467 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 21:57:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.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 21:57:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:57:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:57:37: 1000000 INFO @ Mon, 29 Jun 2020 21:57:42: 2000000 INFO @ Mon, 29 Jun 2020 21:57:47: 3000000 INFO @ Mon, 29 Jun 2020 21:57:52: 4000000 INFO @ Mon, 29 Jun 2020 21:57:57: 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 21:58:01: 6000000 INFO @ Mon, 29 Jun 2020 21:58:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.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 21:58:02: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:58:02: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:58:07: 7000000 INFO @ Mon, 29 Jun 2020 21:58:08: 1000000 INFO @ Mon, 29 Jun 2020 21:58:13: 8000000 INFO @ Mon, 29 Jun 2020 21:58:14: 2000000 INFO @ Mon, 29 Jun 2020 21:58:19: 9000000 INFO @ Mon, 29 Jun 2020 21:58:20: 3000000 INFO @ Mon, 29 Jun 2020 21:58:24: 10000000 INFO @ Mon, 29 Jun 2020 21:58:25: 4000000 INFO @ Mon, 29 Jun 2020 21:58:30: 11000000 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 21:58:31: 5000000 INFO @ Mon, 29 Jun 2020 21:58:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.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 21:58:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:58:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:58:35: 12000000 INFO @ Mon, 29 Jun 2020 21:58:37: 6000000 INFO @ Mon, 29 Jun 2020 21:58:38: 1000000 INFO @ Mon, 29 Jun 2020 21:58:41: 13000000 INFO @ Mon, 29 Jun 2020 21:58:42: 7000000 INFO @ Mon, 29 Jun 2020 21:58:44: 2000000 INFO @ Mon, 29 Jun 2020 21:58:47: 14000000 INFO @ Mon, 29 Jun 2020 21:58:48: 8000000 INFO @ Mon, 29 Jun 2020 21:58:49: 3000000 INFO @ Mon, 29 Jun 2020 21:58:52: 15000000 INFO @ Mon, 29 Jun 2020 21:58:54: 9000000 INFO @ Mon, 29 Jun 2020 21:58:55: 4000000 INFO @ Mon, 29 Jun 2020 21:58:58: 16000000 INFO @ Mon, 29 Jun 2020 21:58:59: 10000000 INFO @ Mon, 29 Jun 2020 21:59:01: 5000000 INFO @ Mon, 29 Jun 2020 21:59:03: 17000000 INFO @ Mon, 29 Jun 2020 21:59:05: 11000000 INFO @ Mon, 29 Jun 2020 21:59:06: 6000000 INFO @ Mon, 29 Jun 2020 21:59:09: 18000000 INFO @ Mon, 29 Jun 2020 21:59:11: 12000000 INFO @ Mon, 29 Jun 2020 21:59:12: 7000000 INFO @ Mon, 29 Jun 2020 21:59:14: 19000000 INFO @ Mon, 29 Jun 2020 21:59:16: 13000000 INFO @ Mon, 29 Jun 2020 21:59:17: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:59:17: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:59:17: #1 total tags in treatment: 19376731 INFO @ Mon, 29 Jun 2020 21:59:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:59:17: #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 21:59:17: #1 tags after filtering in treatment: 19376731 INFO @ Mon, 29 Jun 2020 21:59:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:59:17: #1 finished! INFO @ Mon, 29 Jun 2020 21:59:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:59:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:59:17: 8000000 INFO @ Mon, 29 Jun 2020 21:59:18: #2 number of paired peaks: 78 WARNING @ Mon, 29 Jun 2020 21:59:18: Too few paired peaks (78) 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 21:59:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.05_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/SRX032112/SRX032112.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:59:22: 14000000 INFO @ Mon, 29 Jun 2020 21:59:23: 9000000 INFO @ Mon, 29 Jun 2020 21:59:27: 15000000 INFO @ Mon, 29 Jun 2020 21:59:28: 10000000 INFO @ Mon, 29 Jun 2020 21:59:33: 16000000 INFO @ Mon, 29 Jun 2020 21:59:34: 11000000 INFO @ Mon, 29 Jun 2020 21:59:39: 17000000 INFO @ Mon, 29 Jun 2020 21:59:39: 12000000 INFO @ Mon, 29 Jun 2020 21:59:44: 18000000 INFO @ Mon, 29 Jun 2020 21:59:45: 13000000 INFO @ Mon, 29 Jun 2020 21:59:49: 19000000 INFO @ Mon, 29 Jun 2020 21:59:50: 14000000 INFO @ Mon, 29 Jun 2020 21:59:52: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:59:52: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:59:52: #1 total tags in treatment: 19376731 INFO @ Mon, 29 Jun 2020 21:59:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:59:52: #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 21:59:52: #1 tags after filtering in treatment: 19376731 INFO @ Mon, 29 Jun 2020 21:59:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:59:52: #1 finished! INFO @ Mon, 29 Jun 2020 21:59:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:59:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:59:53: #2 number of paired peaks: 78 WARNING @ Mon, 29 Jun 2020 21:59:53: Too few paired peaks (78) 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 21:59:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.10_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/SRX032112/SRX032112.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:59:55: 15000000 INFO @ Mon, 29 Jun 2020 22:00:01: 16000000 INFO @ Mon, 29 Jun 2020 22:00:06: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:00:11: 18000000 INFO @ Mon, 29 Jun 2020 22:00:17: 19000000 INFO @ Mon, 29 Jun 2020 22:00:19: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:00:19: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:00:19: #1 total tags in treatment: 19376731 INFO @ Mon, 29 Jun 2020 22:00:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:00:19: #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 22:00:19: #1 tags after filtering in treatment: 19376731 INFO @ Mon, 29 Jun 2020 22:00:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:00:19: #1 finished! INFO @ Mon, 29 Jun 2020 22:00:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:00:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:00:20: #2 number of paired peaks: 78 WARNING @ Mon, 29 Jun 2020 22:00:20: Too few paired peaks (78) 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 22:00:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.20_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/SRX032112/SRX032112.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX032112/SRX032112.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。