Job ID = 6527733 SRX = SRX2564150 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:45:44 prefetch.2.10.7: 1) Downloading 'SRR5259269'... 2020-06-29T13:45:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:51:54 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:51:54 prefetch.2.10.7: 1) 'SRR5259269' was downloaded successfully 2020-06-29T13:51:54 prefetch.2.10.7: 'SRR5259269' has 0 unresolved dependencies Read 37838791 spots for SRR5259269/SRR5259269.sra Written 37838791 spots for SRR5259269/SRR5259269.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: 00:17:01 37838791 reads; of these: 37838791 (100.00%) were unpaired; of these: 10308542 (27.24%) aligned 0 times 19925974 (52.66%) aligned exactly 1 time 7604275 (20.10%) aligned >1 times 72.76% overall alignment rate Time searching: 00:17:02 Overall time: 00:17:02 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] 7312133 / 27530249 = 0.2656 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 23:42:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.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 23:42:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:42:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:07: 1000000 INFO @ Mon, 29 Jun 2020 23:43:15: 2000000 INFO @ Mon, 29 Jun 2020 23:43:23: 3000000 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 23:43:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.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 23:43:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:32: 4000000 INFO @ Mon, 29 Jun 2020 23:43:38: 1000000 INFO @ Mon, 29 Jun 2020 23:43:40: 5000000 INFO @ Mon, 29 Jun 2020 23:43:47: 2000000 INFO @ Mon, 29 Jun 2020 23:43:49: 6000000 INFO @ Mon, 29 Jun 2020 23:43:56: 3000000 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 23:43:58: 7000000 INFO @ Mon, 29 Jun 2020 23:43:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.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 23:43:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:44:05: 4000000 INFO @ Mon, 29 Jun 2020 23:44:06: 1000000 INFO @ Mon, 29 Jun 2020 23:44:07: 8000000 INFO @ Mon, 29 Jun 2020 23:44:14: 2000000 INFO @ Mon, 29 Jun 2020 23:44:14: 5000000 INFO @ Mon, 29 Jun 2020 23:44:16: 9000000 INFO @ Mon, 29 Jun 2020 23:44:22: 3000000 INFO @ Mon, 29 Jun 2020 23:44:24: 6000000 INFO @ Mon, 29 Jun 2020 23:44:25: 10000000 INFO @ Mon, 29 Jun 2020 23:44:29: 4000000 INFO @ Mon, 29 Jun 2020 23:44:33: 7000000 INFO @ Mon, 29 Jun 2020 23:44:34: 11000000 INFO @ Mon, 29 Jun 2020 23:44:37: 5000000 INFO @ Mon, 29 Jun 2020 23:44:42: 8000000 INFO @ Mon, 29 Jun 2020 23:44:43: 12000000 INFO @ Mon, 29 Jun 2020 23:44:45: 6000000 INFO @ Mon, 29 Jun 2020 23:44:51: 9000000 INFO @ Mon, 29 Jun 2020 23:44:52: 13000000 INFO @ Mon, 29 Jun 2020 23:44:53: 7000000 INFO @ Mon, 29 Jun 2020 23:45:00: 8000000 INFO @ Mon, 29 Jun 2020 23:45:01: 10000000 INFO @ Mon, 29 Jun 2020 23:45:01: 14000000 INFO @ Mon, 29 Jun 2020 23:45:08: 9000000 INFO @ Mon, 29 Jun 2020 23:45:09: 11000000 INFO @ Mon, 29 Jun 2020 23:45:11: 15000000 INFO @ Mon, 29 Jun 2020 23:45:16: 10000000 INFO @ Mon, 29 Jun 2020 23:45:18: 12000000 INFO @ Mon, 29 Jun 2020 23:45:20: 16000000 INFO @ Mon, 29 Jun 2020 23:45:23: 11000000 INFO @ Mon, 29 Jun 2020 23:45:28: 13000000 INFO @ Mon, 29 Jun 2020 23:45:30: 17000000 INFO @ Mon, 29 Jun 2020 23:45:31: 12000000 INFO @ Mon, 29 Jun 2020 23:45:37: 14000000 INFO @ Mon, 29 Jun 2020 23:45:39: 18000000 INFO @ Mon, 29 Jun 2020 23:45:40: 13000000 INFO @ Mon, 29 Jun 2020 23:45:47: 15000000 INFO @ Mon, 29 Jun 2020 23:45:48: 14000000 INFO @ Mon, 29 Jun 2020 23:45:48: 19000000 INFO @ Mon, 29 Jun 2020 23:45:56: 15000000 INFO @ Mon, 29 Jun 2020 23:45:56: 16000000 INFO @ Mon, 29 Jun 2020 23:45:58: 20000000 INFO @ Mon, 29 Jun 2020 23:46:00: #1 tag size is determined as 74 bps INFO @ Mon, 29 Jun 2020 23:46:00: #1 tag size = 74 INFO @ Mon, 29 Jun 2020 23:46:00: #1 total tags in treatment: 20218116 INFO @ Mon, 29 Jun 2020 23:46:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:00: #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 23:46:00: #1 tags after filtering in treatment: 20218116 INFO @ Mon, 29 Jun 2020 23:46:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:00: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:01: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:46:01: Too few paired peaks (73) 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 23:46:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.05_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/SRX2564150/SRX2564150.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:04: 16000000 INFO @ Mon, 29 Jun 2020 23:46:05: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:46:12: 17000000 INFO @ Mon, 29 Jun 2020 23:46:14: 18000000 INFO @ Mon, 29 Jun 2020 23:46:20: 18000000 INFO @ Mon, 29 Jun 2020 23:46:22: 19000000 INFO @ Mon, 29 Jun 2020 23:46:28: 19000000 INFO @ Mon, 29 Jun 2020 23:46:31: 20000000 INFO @ Mon, 29 Jun 2020 23:46:33: #1 tag size is determined as 74 bps INFO @ Mon, 29 Jun 2020 23:46:33: #1 tag size = 74 INFO @ Mon, 29 Jun 2020 23:46:33: #1 total tags in treatment: 20218116 INFO @ Mon, 29 Jun 2020 23:46:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:33: #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 23:46:33: #1 tags after filtering in treatment: 20218116 INFO @ Mon, 29 Jun 2020 23:46:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:35: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:46:35: Too few paired peaks (73) 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 23:46:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.10_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/SRX2564150/SRX2564150.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:36: 20000000 INFO @ Mon, 29 Jun 2020 23:46:38: #1 tag size is determined as 74 bps INFO @ Mon, 29 Jun 2020 23:46:38: #1 tag size = 74 INFO @ Mon, 29 Jun 2020 23:46:38: #1 total tags in treatment: 20218116 INFO @ Mon, 29 Jun 2020 23:46:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:38: #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 23:46:38: #1 tags after filtering in treatment: 20218116 INFO @ Mon, 29 Jun 2020 23:46:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:38: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:39: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:46:39: Too few paired peaks (73) 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 23:46:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.20_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/SRX2564150/SRX2564150.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564150/SRX2564150.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。