Job ID = 6527731 SRX = SRX2564148 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:11:10 prefetch.2.10.7: 1) Downloading 'SRR5259267'... 2020-06-29T13:11:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:54 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:54 prefetch.2.10.7: 1) 'SRR5259267' was downloaded successfully 2020-06-29T13:15:54 prefetch.2.10.7: 'SRR5259267' has 0 unresolved dependencies Read 39720181 spots for SRR5259267/SRR5259267.sra Written 39720181 spots for SRR5259267/SRR5259267.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: 00:17:46 39720181 reads; of these: 39720181 (100.00%) were unpaired; of these: 16406812 (41.31%) aligned 0 times 16777429 (42.24%) aligned exactly 1 time 6535940 (16.45%) aligned >1 times 58.69% overall alignment rate Time searching: 00:17:46 Overall time: 00:17:46 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] 4081872 / 23313369 = 0.1751 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 23:02:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.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 23:02:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:28: 1000000 INFO @ Mon, 29 Jun 2020 23:02:36: 2000000 INFO @ Mon, 29 Jun 2020 23:02:44: 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 23:02:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.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 23:02:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:51: 4000000 INFO @ Mon, 29 Jun 2020 23:02:58: 1000000 INFO @ Mon, 29 Jun 2020 23:02:59: 5000000 INFO @ Mon, 29 Jun 2020 23:03:06: 2000000 INFO @ Mon, 29 Jun 2020 23:03:07: 6000000 INFO @ Mon, 29 Jun 2020 23:03:14: 3000000 INFO @ Mon, 29 Jun 2020 23:03:15: 7000000 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 23:03:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.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 23:03:21: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:03:21: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:03:21: 4000000 INFO @ Mon, 29 Jun 2020 23:03:24: 8000000 INFO @ Mon, 29 Jun 2020 23:03:29: 5000000 INFO @ Mon, 29 Jun 2020 23:03:30: 1000000 INFO @ Mon, 29 Jun 2020 23:03:33: 9000000 INFO @ Mon, 29 Jun 2020 23:03:37: 6000000 INFO @ Mon, 29 Jun 2020 23:03:38: 2000000 INFO @ Mon, 29 Jun 2020 23:03:42: 10000000 INFO @ Mon, 29 Jun 2020 23:03:44: 7000000 INFO @ Mon, 29 Jun 2020 23:03:47: 3000000 INFO @ Mon, 29 Jun 2020 23:03:52: 11000000 INFO @ Mon, 29 Jun 2020 23:03:52: 8000000 INFO @ Mon, 29 Jun 2020 23:03:56: 4000000 INFO @ Mon, 29 Jun 2020 23:04:00: 9000000 INFO @ Mon, 29 Jun 2020 23:04:01: 12000000 INFO @ Mon, 29 Jun 2020 23:04:05: 5000000 INFO @ Mon, 29 Jun 2020 23:04:08: 10000000 INFO @ Mon, 29 Jun 2020 23:04:10: 13000000 INFO @ Mon, 29 Jun 2020 23:04:14: 6000000 INFO @ Mon, 29 Jun 2020 23:04:15: 11000000 INFO @ Mon, 29 Jun 2020 23:04:19: 14000000 INFO @ Mon, 29 Jun 2020 23:04:23: 12000000 INFO @ Mon, 29 Jun 2020 23:04:23: 7000000 INFO @ Mon, 29 Jun 2020 23:04:29: 15000000 INFO @ Mon, 29 Jun 2020 23:04:31: 13000000 INFO @ Mon, 29 Jun 2020 23:04:32: 8000000 INFO @ Mon, 29 Jun 2020 23:04:38: 14000000 INFO @ Mon, 29 Jun 2020 23:04:38: 16000000 INFO @ Mon, 29 Jun 2020 23:04:40: 9000000 INFO @ Mon, 29 Jun 2020 23:04:46: 15000000 INFO @ Mon, 29 Jun 2020 23:04:48: 17000000 INFO @ Mon, 29 Jun 2020 23:04:49: 10000000 INFO @ Mon, 29 Jun 2020 23:04:54: 16000000 INFO @ Mon, 29 Jun 2020 23:04:57: 18000000 INFO @ Mon, 29 Jun 2020 23:04:58: 11000000 INFO @ Mon, 29 Jun 2020 23:05:02: 17000000 INFO @ Mon, 29 Jun 2020 23:05:06: 19000000 INFO @ Mon, 29 Jun 2020 23:05:07: 12000000 INFO @ Mon, 29 Jun 2020 23:05:08: #1 tag size is determined as 71 bps INFO @ Mon, 29 Jun 2020 23:05:08: #1 tag size = 71 INFO @ Mon, 29 Jun 2020 23:05:08: #1 total tags in treatment: 19231497 INFO @ Mon, 29 Jun 2020 23:05:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:08: #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 23:05:09: #1 tags after filtering in treatment: 19231497 INFO @ Mon, 29 Jun 2020 23:05:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:09: 18000000 INFO @ Mon, 29 Jun 2020 23:05:10: #2 number of paired peaks: 63 WARNING @ Mon, 29 Jun 2020 23:05:10: Too few paired peaks (63) 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 23:05:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.05_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/SRX2564148/SRX2564148.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:05:14: 13000000 INFO @ Mon, 29 Jun 2020 23:05:17: 19000000 INFO @ Mon, 29 Jun 2020 23:05:19: #1 tag size is determined as 71 bps INFO @ Mon, 29 Jun 2020 23:05:19: #1 tag size = 71 INFO @ Mon, 29 Jun 2020 23:05:19: #1 total tags in treatment: 19231497 INFO @ Mon, 29 Jun 2020 23:05:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:19: #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 23:05:19: #1 tags after filtering in treatment: 19231497 INFO @ Mon, 29 Jun 2020 23:05:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:19: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:20: #2 number of paired peaks: 63 WARNING @ Mon, 29 Jun 2020 23:05:20: Too few paired peaks (63) 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 23:05:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.10_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/SRX2564148/SRX2564148.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:05:22: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:05:30: 15000000 INFO @ Mon, 29 Jun 2020 23:05:37: 16000000 INFO @ Mon, 29 Jun 2020 23:05:45: 17000000 INFO @ Mon, 29 Jun 2020 23:05:52: 18000000 INFO @ Mon, 29 Jun 2020 23:06:00: 19000000 INFO @ Mon, 29 Jun 2020 23:06:02: #1 tag size is determined as 71 bps INFO @ Mon, 29 Jun 2020 23:06:02: #1 tag size = 71 INFO @ Mon, 29 Jun 2020 23:06:02: #1 total tags in treatment: 19231497 INFO @ Mon, 29 Jun 2020 23:06:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:06:02: #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 23:06:02: #1 tags after filtering in treatment: 19231497 INFO @ Mon, 29 Jun 2020 23:06:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:06:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:06:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:06:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:06:03: #2 number of paired peaks: 63 WARNING @ Mon, 29 Jun 2020 23:06:03: Too few paired peaks (63) 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 23:06:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.20_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/SRX2564148/SRX2564148.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564148/SRX2564148.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。