Job ID = 6527530 SRX = SRX104966 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:58:27 prefetch.2.10.7: 1) Downloading 'SRR363410'... 2020-06-29T12:58:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:59:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:59:50 prefetch.2.10.7: 'SRR363410' is valid 2020-06-29T12:59:50 prefetch.2.10.7: 1) 'SRR363410' was downloaded successfully Read 23789217 spots for SRR363410/SRR363410.sra Written 23789217 spots for SRR363410/SRR363410.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: 00:05:55 23789217 reads; of these: 23789217 (100.00%) were unpaired; of these: 1358490 (5.71%) aligned 0 times 18235092 (76.65%) aligned exactly 1 time 4195635 (17.64%) aligned >1 times 94.29% overall alignment rate Time searching: 00:05:55 Overall time: 00:05:55 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] 4262419 / 22430727 = 0.1900 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 22:14:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.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 22:14:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:14:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:14:58: 1000000 INFO @ Mon, 29 Jun 2020 22:15:03: 2000000 INFO @ Mon, 29 Jun 2020 22:15:08: 3000000 INFO @ Mon, 29 Jun 2020 22:15:13: 4000000 INFO @ Mon, 29 Jun 2020 22:15:18: 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 22:15:23: 6000000 INFO @ Mon, 29 Jun 2020 22:15:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.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 22:15:23: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:23: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:29: 7000000 INFO @ Mon, 29 Jun 2020 22:15:30: 1000000 INFO @ Mon, 29 Jun 2020 22:15:34: 8000000 INFO @ Mon, 29 Jun 2020 22:15:36: 2000000 INFO @ Mon, 29 Jun 2020 22:15:40: 9000000 INFO @ Mon, 29 Jun 2020 22:15:42: 3000000 INFO @ Mon, 29 Jun 2020 22:15:46: 10000000 INFO @ Mon, 29 Jun 2020 22:15:49: 4000000 BedGraph に変換中... INFO @ Mon, 29 Jun 2020 22:15:51: 11000000 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 22:15:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.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 22:15:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:55: 5000000 INFO @ Mon, 29 Jun 2020 22:15:57: 12000000 INFO @ Mon, 29 Jun 2020 22:15:59: 1000000 INFO @ Mon, 29 Jun 2020 22:16:02: 6000000 INFO @ Mon, 29 Jun 2020 22:16:03: 13000000 INFO @ Mon, 29 Jun 2020 22:16:05: 2000000 INFO @ Mon, 29 Jun 2020 22:16:08: 7000000 INFO @ Mon, 29 Jun 2020 22:16:09: 14000000 INFO @ Mon, 29 Jun 2020 22:16:11: 3000000 INFO @ Mon, 29 Jun 2020 22:16:14: 15000000 INFO @ Mon, 29 Jun 2020 22:16:15: 8000000 INFO @ Mon, 29 Jun 2020 22:16:16: 4000000 INFO @ Mon, 29 Jun 2020 22:16:20: 16000000 INFO @ Mon, 29 Jun 2020 22:16:22: 9000000 INFO @ Mon, 29 Jun 2020 22:16:22: 5000000 INFO @ Mon, 29 Jun 2020 22:16:26: 17000000 INFO @ Mon, 29 Jun 2020 22:16:28: 10000000 INFO @ Mon, 29 Jun 2020 22:16:28: 6000000 INFO @ Mon, 29 Jun 2020 22:16:31: 18000000 INFO @ Mon, 29 Jun 2020 22:16:32: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:16:32: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:16:32: #1 total tags in treatment: 18168308 INFO @ Mon, 29 Jun 2020 22:16:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:32: #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 22:16:33: #1 tags after filtering in treatment: 18168308 INFO @ Mon, 29 Jun 2020 22:16:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:33: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:34: 7000000 INFO @ Mon, 29 Jun 2020 22:16:34: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:16:34: Too few paired peaks (20) 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 22:16:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.05_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/SRX104966/SRX104966.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:34: 11000000 INFO @ Mon, 29 Jun 2020 22:16:40: 8000000 INFO @ Mon, 29 Jun 2020 22:16:40: 12000000 INFO @ Mon, 29 Jun 2020 22:16:45: 9000000 INFO @ Mon, 29 Jun 2020 22:16:47: 13000000 INFO @ Mon, 29 Jun 2020 22:16:51: 10000000 INFO @ Mon, 29 Jun 2020 22:16:53: 14000000 INFO @ Mon, 29 Jun 2020 22:16:57: 11000000 INFO @ Mon, 29 Jun 2020 22:16:59: 15000000 INFO @ Mon, 29 Jun 2020 22:17:02: 12000000 INFO @ Mon, 29 Jun 2020 22:17:06: 16000000 INFO @ Mon, 29 Jun 2020 22:17:08: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:17:12: 17000000 INFO @ Mon, 29 Jun 2020 22:17:14: 14000000 INFO @ Mon, 29 Jun 2020 22:17:18: 18000000 INFO @ Mon, 29 Jun 2020 22:17:19: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:17:19: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:17:19: #1 total tags in treatment: 18168308 INFO @ Mon, 29 Jun 2020 22:17:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:17:19: #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 22:17:19: #1 tags after filtering in treatment: 18168308 INFO @ Mon, 29 Jun 2020 22:17:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:17:19: #1 finished! INFO @ Mon, 29 Jun 2020 22:17:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:17:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:17:19: 15000000 INFO @ Mon, 29 Jun 2020 22:17:20: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:17:20: Too few paired peaks (20) 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 22:17:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.10_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/SRX104966/SRX104966.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:17:25: 16000000 INFO @ Mon, 29 Jun 2020 22:17:30: 17000000 INFO @ Mon, 29 Jun 2020 22:17:35: 18000000 INFO @ Mon, 29 Jun 2020 22:17:36: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:17:36: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:17:36: #1 total tags in treatment: 18168308 INFO @ Mon, 29 Jun 2020 22:17:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:17:36: #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 22:17:37: #1 tags after filtering in treatment: 18168308 INFO @ Mon, 29 Jun 2020 22:17:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:17:37: #1 finished! INFO @ Mon, 29 Jun 2020 22:17:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:17:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:17:38: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:17:38: Too few paired peaks (20) 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 22:17:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.20_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/SRX104966/SRX104966.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104966/SRX104966.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。