Job ID = 6528488 SRX = SRX760384 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:03:40 prefetch.2.10.7: 1) Downloading 'SRR1653485'... 2020-06-29T15:03:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:07:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:07:55 prefetch.2.10.7: 1) 'SRR1653485' was downloaded successfully Read 31270963 spots for SRR1653485/SRR1653485.sra Written 31270963 spots for SRR1653485/SRR1653485.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: 00:10:55 31270963 reads; of these: 31270963 (100.00%) were unpaired; of these: 2240368 (7.16%) aligned 0 times 20897219 (66.83%) aligned exactly 1 time 8133376 (26.01%) aligned >1 times 92.84% overall alignment rate Time searching: 00:10:55 Overall time: 00:10:55 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 12 files... [bam_rmdupse_core] 5331184 / 29030595 = 0.1836 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 @ Tue, 30 Jun 2020 00:33:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.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 @ Tue, 30 Jun 2020 00:33:53: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:33:53: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:33:58: 1000000 INFO @ Tue, 30 Jun 2020 00:34:03: 2000000 INFO @ Tue, 30 Jun 2020 00:34:09: 3000000 INFO @ Tue, 30 Jun 2020 00:34:14: 4000000 INFO @ Tue, 30 Jun 2020 00:34:19: 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 @ Tue, 30 Jun 2020 00:34:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.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 @ Tue, 30 Jun 2020 00:34:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:24: 6000000 INFO @ Tue, 30 Jun 2020 00:34:30: 1000000 INFO @ Tue, 30 Jun 2020 00:34:30: 7000000 INFO @ Tue, 30 Jun 2020 00:34:37: 2000000 INFO @ Tue, 30 Jun 2020 00:34:37: 8000000 INFO @ Tue, 30 Jun 2020 00:34:43: 9000000 INFO @ Tue, 30 Jun 2020 00:34:44: 3000000 INFO @ Tue, 30 Jun 2020 00:34:49: 10000000 INFO @ Tue, 30 Jun 2020 00:34:50: 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 @ Tue, 30 Jun 2020 00:34:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.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 @ Tue, 30 Jun 2020 00:34:52: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:52: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:55: 11000000 INFO @ Tue, 30 Jun 2020 00:34:57: 5000000 INFO @ Tue, 30 Jun 2020 00:34:59: 1000000 INFO @ Tue, 30 Jun 2020 00:35:01: 12000000 INFO @ Tue, 30 Jun 2020 00:35:04: 6000000 INFO @ Tue, 30 Jun 2020 00:35:05: 2000000 INFO @ Tue, 30 Jun 2020 00:35:07: 13000000 INFO @ Tue, 30 Jun 2020 00:35:11: 3000000 INFO @ Tue, 30 Jun 2020 00:35:12: 7000000 INFO @ Tue, 30 Jun 2020 00:35:13: 14000000 INFO @ Tue, 30 Jun 2020 00:35:17: 4000000 INFO @ Tue, 30 Jun 2020 00:35:19: 8000000 INFO @ Tue, 30 Jun 2020 00:35:20: 15000000 INFO @ Tue, 30 Jun 2020 00:35:23: 5000000 INFO @ Tue, 30 Jun 2020 00:35:25: 9000000 INFO @ Tue, 30 Jun 2020 00:35:26: 16000000 INFO @ Tue, 30 Jun 2020 00:35:30: 6000000 INFO @ Tue, 30 Jun 2020 00:35:32: 17000000 INFO @ Tue, 30 Jun 2020 00:35:32: 10000000 INFO @ Tue, 30 Jun 2020 00:35:36: 7000000 INFO @ Tue, 30 Jun 2020 00:35:38: 18000000 INFO @ Tue, 30 Jun 2020 00:35:39: 11000000 INFO @ Tue, 30 Jun 2020 00:35:42: 8000000 INFO @ Tue, 30 Jun 2020 00:35:44: 19000000 INFO @ Tue, 30 Jun 2020 00:35:46: 12000000 INFO @ Tue, 30 Jun 2020 00:35:48: 9000000 INFO @ Tue, 30 Jun 2020 00:35:51: 20000000 INFO @ Tue, 30 Jun 2020 00:35:53: 13000000 INFO @ Tue, 30 Jun 2020 00:35:54: 10000000 INFO @ Tue, 30 Jun 2020 00:35:57: 21000000 INFO @ Tue, 30 Jun 2020 00:36:00: 14000000 INFO @ Tue, 30 Jun 2020 00:36:01: 11000000 INFO @ Tue, 30 Jun 2020 00:36:03: 22000000 INFO @ Tue, 30 Jun 2020 00:36:07: 15000000 INFO @ Tue, 30 Jun 2020 00:36:07: 12000000 INFO @ Tue, 30 Jun 2020 00:36:09: 23000000 INFO @ Tue, 30 Jun 2020 00:36:13: 13000000 INFO @ Tue, 30 Jun 2020 00:36:13: 16000000 INFO @ Tue, 30 Jun 2020 00:36:13: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:36:13: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:36:13: #1 total tags in treatment: 23699411 INFO @ Tue, 30 Jun 2020 00:36:13: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:36:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:36:14: #1 tags after filtering in treatment: 23699411 INFO @ Tue, 30 Jun 2020 00:36:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:36:14: #1 finished! INFO @ Tue, 30 Jun 2020 00:36:14: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:36:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:36:15: #2 number of paired peaks: 59 WARNING @ Tue, 30 Jun 2020 00:36:15: Too few paired peaks (59) 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 @ Tue, 30 Jun 2020 00:36:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.05_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/SRX760384/SRX760384.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:36:19: 14000000 INFO @ Tue, 30 Jun 2020 00:36:20: 17000000 INFO @ Tue, 30 Jun 2020 00:36:25: 15000000 INFO @ Tue, 30 Jun 2020 00:36:27: 18000000 INFO @ Tue, 30 Jun 2020 00:36:31: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:36:35: 19000000 INFO @ Tue, 30 Jun 2020 00:36:37: 17000000 INFO @ Tue, 30 Jun 2020 00:36:42: 20000000 INFO @ Tue, 30 Jun 2020 00:36:43: 18000000 INFO @ Tue, 30 Jun 2020 00:36:48: 21000000 INFO @ Tue, 30 Jun 2020 00:36:50: 19000000 INFO @ Tue, 30 Jun 2020 00:36:55: 22000000 INFO @ Tue, 30 Jun 2020 00:36:56: 20000000 INFO @ Tue, 30 Jun 2020 00:37:02: 21000000 INFO @ Tue, 30 Jun 2020 00:37:02: 23000000 INFO @ Tue, 30 Jun 2020 00:37:07: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:37:07: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:37:07: #1 total tags in treatment: 23699411 INFO @ Tue, 30 Jun 2020 00:37:07: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:37:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:37:08: #1 tags after filtering in treatment: 23699411 INFO @ Tue, 30 Jun 2020 00:37:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:37:08: #1 finished! INFO @ Tue, 30 Jun 2020 00:37:08: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:37:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:37:08: 22000000 INFO @ Tue, 30 Jun 2020 00:37:09: #2 number of paired peaks: 59 WARNING @ Tue, 30 Jun 2020 00:37:09: Too few paired peaks (59) 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 @ Tue, 30 Jun 2020 00:37:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.10_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/SRX760384/SRX760384.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:37:14: 23000000 INFO @ Tue, 30 Jun 2020 00:37:18: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:37:18: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:37:18: #1 total tags in treatment: 23699411 INFO @ Tue, 30 Jun 2020 00:37:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:37:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:37:18: #1 tags after filtering in treatment: 23699411 INFO @ Tue, 30 Jun 2020 00:37:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:37:18: #1 finished! INFO @ Tue, 30 Jun 2020 00:37:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:37:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:37:20: #2 number of paired peaks: 59 WARNING @ Tue, 30 Jun 2020 00:37:20: Too few paired peaks (59) 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 @ Tue, 30 Jun 2020 00:37:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.20_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/SRX760384/SRX760384.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX760384/SRX760384.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。