Job ID = 6528383 SRX = SRX5535381 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:07:40 prefetch.2.10.7: 1) Downloading 'SRR8743309'... 2020-06-29T15:07:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:10:15 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:10:16 prefetch.2.10.7: 'SRR8743309' is valid 2020-06-29T15:10:16 prefetch.2.10.7: 1) 'SRR8743309' was downloaded successfully Read 23714187 spots for SRR8743309/SRR8743309.sra Written 23714187 spots for SRR8743309/SRR8743309.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: 00:07:37 23714187 reads; of these: 23714187 (100.00%) were unpaired; of these: 555931 (2.34%) aligned 0 times 17640555 (74.39%) aligned exactly 1 time 5517701 (23.27%) aligned >1 times 97.66% overall alignment rate Time searching: 00:07:37 Overall time: 00:07:37 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] 6914477 / 23158256 = 0.2986 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 00:28:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.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 00:28:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:28:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:28:12: 1000000 INFO @ Tue, 30 Jun 2020 00:28:18: 2000000 INFO @ Tue, 30 Jun 2020 00:28:23: 3000000 INFO @ Tue, 30 Jun 2020 00:28:29: 4000000 INFO @ Tue, 30 Jun 2020 00:28:34: 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 00:28:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.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 00:28:36: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:28:36: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:28:40: 6000000 INFO @ Tue, 30 Jun 2020 00:28:42: 1000000 INFO @ Tue, 30 Jun 2020 00:28:46: 7000000 INFO @ Tue, 30 Jun 2020 00:28:48: 2000000 INFO @ Tue, 30 Jun 2020 00:28:52: 8000000 INFO @ Tue, 30 Jun 2020 00:28:54: 3000000 INFO @ Tue, 30 Jun 2020 00:28:58: 9000000 INFO @ Tue, 30 Jun 2020 00:29:00: 4000000 INFO @ Tue, 30 Jun 2020 00:29:04: 10000000 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 00:29:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.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 00:29:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:06: 5000000 INFO @ Tue, 30 Jun 2020 00:29:10: 11000000 INFO @ Tue, 30 Jun 2020 00:29:12: 6000000 INFO @ Tue, 30 Jun 2020 00:29:13: 1000000 INFO @ Tue, 30 Jun 2020 00:29:17: 12000000 INFO @ Tue, 30 Jun 2020 00:29:18: 7000000 INFO @ Tue, 30 Jun 2020 00:29:19: 2000000 INFO @ Tue, 30 Jun 2020 00:29:23: 13000000 INFO @ Tue, 30 Jun 2020 00:29:24: 8000000 INFO @ Tue, 30 Jun 2020 00:29:25: 3000000 INFO @ Tue, 30 Jun 2020 00:29:29: 14000000 INFO @ Tue, 30 Jun 2020 00:29:31: 9000000 INFO @ Tue, 30 Jun 2020 00:29:31: 4000000 INFO @ Tue, 30 Jun 2020 00:29:35: 15000000 INFO @ Tue, 30 Jun 2020 00:29:37: 10000000 INFO @ Tue, 30 Jun 2020 00:29:37: 5000000 INFO @ Tue, 30 Jun 2020 00:29:41: 16000000 INFO @ Tue, 30 Jun 2020 00:29:42: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:29:42: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:29:42: #1 total tags in treatment: 16243779 INFO @ Tue, 30 Jun 2020 00:29:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:29:42: #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 00:29:43: 11000000 INFO @ Tue, 30 Jun 2020 00:29:43: #1 tags after filtering in treatment: 16243779 INFO @ Tue, 30 Jun 2020 00:29:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:29:43: #1 finished! INFO @ Tue, 30 Jun 2020 00:29:43: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:29:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:29:43: 6000000 INFO @ Tue, 30 Jun 2020 00:29:44: #2 number of paired peaks: 83 WARNING @ Tue, 30 Jun 2020 00:29:44: Too few paired peaks (83) 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 00:29:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.05_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/SRX5535381/SRX5535381.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:29:49: 12000000 INFO @ Tue, 30 Jun 2020 00:29:49: 7000000 INFO @ Tue, 30 Jun 2020 00:29:55: 13000000 INFO @ Tue, 30 Jun 2020 00:29:55: 8000000 INFO @ Tue, 30 Jun 2020 00:30:00: 14000000 INFO @ Tue, 30 Jun 2020 00:30:01: 9000000 INFO @ Tue, 30 Jun 2020 00:30:06: 15000000 INFO @ Tue, 30 Jun 2020 00:30:07: 10000000 INFO @ Tue, 30 Jun 2020 00:30:12: 16000000 INFO @ Tue, 30 Jun 2020 00:30:13: 11000000 INFO @ Tue, 30 Jun 2020 00:30:14: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:30:14: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:30:14: #1 total tags in treatment: 16243779 INFO @ Tue, 30 Jun 2020 00:30:14: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:30:14: #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 00:30:14: #1 tags after filtering in treatment: 16243779 INFO @ Tue, 30 Jun 2020 00:30:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:30:14: #1 finished! INFO @ Tue, 30 Jun 2020 00:30:14: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:30:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:30:15: #2 number of paired peaks: 83 WARNING @ Tue, 30 Jun 2020 00:30:15: Too few paired peaks (83) 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 00:30:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.10_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/SRX5535381/SRX5535381.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:30:19: 12000000 INFO @ Tue, 30 Jun 2020 00:30:24: 13000000 INFO @ Tue, 30 Jun 2020 00:30:30: 14000000 INFO @ Tue, 30 Jun 2020 00:30:35: 15000000 INFO @ Tue, 30 Jun 2020 00:30:40: 16000000 INFO @ Tue, 30 Jun 2020 00:30:42: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:30:42: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:30:42: #1 total tags in treatment: 16243779 INFO @ Tue, 30 Jun 2020 00:30:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:30:42: #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 00:30:42: #1 tags after filtering in treatment: 16243779 INFO @ Tue, 30 Jun 2020 00:30:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:30:42: #1 finished! INFO @ Tue, 30 Jun 2020 00:30:42: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:30:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:30:43: #2 number of paired peaks: 83 WARNING @ Tue, 30 Jun 2020 00:30:43: Too few paired peaks (83) 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 00:30:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.20_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/SRX5535381/SRX5535381.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535381/SRX5535381.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。