Job ID = 6527905 SRX = SRX3159487 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:25:21 prefetch.2.10.7: 1) Downloading 'SRR6004217'... 2020-06-29T14:25:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:27:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:27:32 prefetch.2.10.7: 'SRR6004217' is valid 2020-06-29T14:27:32 prefetch.2.10.7: 1) 'SRR6004217' was downloaded successfully 2020-06-29T14:27:32 prefetch.2.10.7: 'SRR6004217' has 0 unresolved dependencies Read 27016030 spots for SRR6004217/SRR6004217.sra Written 27016030 spots for SRR6004217/SRR6004217.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: 00:08:08 27016030 reads; of these: 27016030 (100.00%) were unpaired; of these: 1047336 (3.88%) aligned 0 times 20462334 (75.74%) aligned exactly 1 time 5506360 (20.38%) aligned >1 times 96.12% overall alignment rate Time searching: 00:08:08 Overall time: 00:08:08 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] 3566119 / 25968694 = 0.1373 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 23:49:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.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 23:49:54: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:49:54: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:49:59: 1000000 INFO @ Mon, 29 Jun 2020 23:50:04: 2000000 INFO @ Mon, 29 Jun 2020 23:50:09: 3000000 INFO @ Mon, 29 Jun 2020 23:50:14: 4000000 INFO @ Mon, 29 Jun 2020 23:50:19: 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 @ Mon, 29 Jun 2020 23:50:24: 6000000 INFO @ Mon, 29 Jun 2020 23:50:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.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 23:50:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:29: 7000000 INFO @ Mon, 29 Jun 2020 23:50:29: 1000000 INFO @ Mon, 29 Jun 2020 23:50:34: 8000000 INFO @ Mon, 29 Jun 2020 23:50:34: 2000000 INFO @ Mon, 29 Jun 2020 23:50:39: 9000000 INFO @ Mon, 29 Jun 2020 23:50:40: 3000000 INFO @ Mon, 29 Jun 2020 23:50:44: 10000000 INFO @ Mon, 29 Jun 2020 23:50:45: 4000000 INFO @ Mon, 29 Jun 2020 23:50:49: 11000000 INFO @ Mon, 29 Jun 2020 23:50:50: 5000000 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 23:50:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.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 23:50:54: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:54: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:54: 12000000 INFO @ Mon, 29 Jun 2020 23:50:55: 6000000 INFO @ Mon, 29 Jun 2020 23:50:59: 1000000 INFO @ Mon, 29 Jun 2020 23:51:00: 13000000 INFO @ Mon, 29 Jun 2020 23:51:00: 7000000 INFO @ Mon, 29 Jun 2020 23:51:05: 2000000 INFO @ Mon, 29 Jun 2020 23:51:05: 14000000 INFO @ Mon, 29 Jun 2020 23:51:06: 8000000 INFO @ Mon, 29 Jun 2020 23:51:10: 3000000 INFO @ Mon, 29 Jun 2020 23:51:10: 15000000 INFO @ Mon, 29 Jun 2020 23:51:11: 9000000 INFO @ Mon, 29 Jun 2020 23:51:15: 16000000 INFO @ Mon, 29 Jun 2020 23:51:15: 4000000 INFO @ Mon, 29 Jun 2020 23:51:16: 10000000 INFO @ Mon, 29 Jun 2020 23:51:20: 17000000 INFO @ Mon, 29 Jun 2020 23:51:20: 5000000 INFO @ Mon, 29 Jun 2020 23:51:21: 11000000 INFO @ Mon, 29 Jun 2020 23:51:25: 18000000 INFO @ Mon, 29 Jun 2020 23:51:25: 6000000 INFO @ Mon, 29 Jun 2020 23:51:26: 12000000 INFO @ Mon, 29 Jun 2020 23:51:30: 19000000 INFO @ Mon, 29 Jun 2020 23:51:31: 7000000 INFO @ Mon, 29 Jun 2020 23:51:31: 13000000 INFO @ Mon, 29 Jun 2020 23:51:36: 20000000 INFO @ Mon, 29 Jun 2020 23:51:36: 8000000 INFO @ Mon, 29 Jun 2020 23:51:37: 14000000 INFO @ Mon, 29 Jun 2020 23:51:41: 21000000 INFO @ Mon, 29 Jun 2020 23:51:41: 9000000 INFO @ Mon, 29 Jun 2020 23:51:42: 15000000 INFO @ Mon, 29 Jun 2020 23:51:46: 22000000 INFO @ Mon, 29 Jun 2020 23:51:46: 10000000 INFO @ Mon, 29 Jun 2020 23:51:47: 16000000 INFO @ Mon, 29 Jun 2020 23:51:48: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:51:48: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:51:48: #1 total tags in treatment: 22402575 INFO @ Mon, 29 Jun 2020 23:51:48: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:51:48: #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 23:51:48: #1 tags after filtering in treatment: 22402575 INFO @ Mon, 29 Jun 2020 23:51:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:51:48: #1 finished! INFO @ Mon, 29 Jun 2020 23:51:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:51:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:51:50: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 23:51:50: Too few paired peaks (6) 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 23:51:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:51:51: 11000000 INFO @ Mon, 29 Jun 2020 23:51:52: 17000000 INFO @ Mon, 29 Jun 2020 23:51:56: 12000000 INFO @ Mon, 29 Jun 2020 23:51:57: 18000000 INFO @ Mon, 29 Jun 2020 23:52:01: 13000000 INFO @ Mon, 29 Jun 2020 23:52:02: 19000000 INFO @ Mon, 29 Jun 2020 23:52:06: 14000000 INFO @ Mon, 29 Jun 2020 23:52:07: 20000000 INFO @ Mon, 29 Jun 2020 23:52:11: 15000000 INFO @ Mon, 29 Jun 2020 23:52:12: 21000000 INFO @ Mon, 29 Jun 2020 23:52:16: 16000000 INFO @ Mon, 29 Jun 2020 23:52:17: 22000000 INFO @ Mon, 29 Jun 2020 23:52:19: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:52:19: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:52:19: #1 total tags in treatment: 22402575 INFO @ Mon, 29 Jun 2020 23:52:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:52:19: #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 23:52:20: #1 tags after filtering in treatment: 22402575 INFO @ Mon, 29 Jun 2020 23:52:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:52:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:52:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:52:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:52:21: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 23:52:21: Too few paired peaks (6) 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 23:52:21: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 23:52:21: 17000000 cut: /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.10_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/SRX3159487/SRX3159487.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:52:26: 18000000 INFO @ Mon, 29 Jun 2020 23:52:31: 19000000 INFO @ Mon, 29 Jun 2020 23:52:36: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:52:40: 21000000 INFO @ Mon, 29 Jun 2020 23:52:45: 22000000 INFO @ Mon, 29 Jun 2020 23:52:47: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:52:47: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:52:47: #1 total tags in treatment: 22402575 INFO @ Mon, 29 Jun 2020 23:52:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:52:47: #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 23:52:48: #1 tags after filtering in treatment: 22402575 INFO @ Mon, 29 Jun 2020 23:52:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:52:48: #1 finished! INFO @ Mon, 29 Jun 2020 23:52:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:52:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:52:49: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 23:52:49: Too few paired peaks (6) 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 23:52:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.20_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/SRX3159487/SRX3159487.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159487/SRX3159487.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。