Job ID = 6528320 SRX = SRX5343141 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:14:36 prefetch.2.10.7: 1) Downloading 'SRR8540841'... 2020-06-29T15:14:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:17:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:17:27 prefetch.2.10.7: 1) 'SRR8540841' was downloaded successfully 2020-06-29T15:17:27 prefetch.2.10.7: 'SRR8540841' has 0 unresolved dependencies Read 32207365 spots for SRR8540841/SRR8540841.sra Written 32207365 spots for SRR8540841/SRR8540841.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: 00:15:37 32207365 reads; of these: 32207365 (100.00%) were unpaired; of these: 992826 (3.08%) aligned 0 times 21559759 (66.94%) aligned exactly 1 time 9654780 (29.98%) aligned >1 times 96.92% overall alignment rate Time searching: 00:15:37 Overall time: 00:15:37 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 16 files... [bam_rmdupse_core] 3900598 / 31214539 = 0.1250 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 01:00:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.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 01:00:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:00:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:00:56: 1000000 INFO @ Tue, 30 Jun 2020 01:01:02: 2000000 INFO @ Tue, 30 Jun 2020 01:01:08: 3000000 INFO @ Tue, 30 Jun 2020 01:01:13: 4000000 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 01:01:19: 5000000 INFO @ Tue, 30 Jun 2020 01:01:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.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 01:01:20: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:01:20: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:01:25: 6000000 INFO @ Tue, 30 Jun 2020 01:01:26: 1000000 INFO @ Tue, 30 Jun 2020 01:01:31: 7000000 INFO @ Tue, 30 Jun 2020 01:01:31: 2000000 INFO @ Tue, 30 Jun 2020 01:01:37: 3000000 INFO @ Tue, 30 Jun 2020 01:01:37: 8000000 INFO @ Tue, 30 Jun 2020 01:01:43: 4000000 INFO @ Tue, 30 Jun 2020 01:01:43: 9000000 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 01:01:49: 5000000 INFO @ Tue, 30 Jun 2020 01:01:49: 10000000 INFO @ Tue, 30 Jun 2020 01:01:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.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 01:01:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:01:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:01:55: 6000000 INFO @ Tue, 30 Jun 2020 01:01:55: 11000000 INFO @ Tue, 30 Jun 2020 01:01:57: 1000000 INFO @ Tue, 30 Jun 2020 01:02:01: 12000000 INFO @ Tue, 30 Jun 2020 01:02:02: 7000000 INFO @ Tue, 30 Jun 2020 01:02:03: 2000000 INFO @ Tue, 30 Jun 2020 01:02:07: 13000000 INFO @ Tue, 30 Jun 2020 01:02:08: 8000000 INFO @ Tue, 30 Jun 2020 01:02:10: 3000000 INFO @ Tue, 30 Jun 2020 01:02:13: 14000000 INFO @ Tue, 30 Jun 2020 01:02:14: 9000000 INFO @ Tue, 30 Jun 2020 01:02:16: 4000000 INFO @ Tue, 30 Jun 2020 01:02:19: 15000000 INFO @ Tue, 30 Jun 2020 01:02:21: 10000000 INFO @ Tue, 30 Jun 2020 01:02:23: 5000000 INFO @ Tue, 30 Jun 2020 01:02:25: 16000000 INFO @ Tue, 30 Jun 2020 01:02:27: 11000000 INFO @ Tue, 30 Jun 2020 01:02:30: 6000000 INFO @ Tue, 30 Jun 2020 01:02:31: 17000000 INFO @ Tue, 30 Jun 2020 01:02:33: 12000000 INFO @ Tue, 30 Jun 2020 01:02:36: 7000000 INFO @ Tue, 30 Jun 2020 01:02:38: 18000000 INFO @ Tue, 30 Jun 2020 01:02:39: 13000000 INFO @ Tue, 30 Jun 2020 01:02:42: 8000000 INFO @ Tue, 30 Jun 2020 01:02:44: 19000000 INFO @ Tue, 30 Jun 2020 01:02:46: 14000000 INFO @ Tue, 30 Jun 2020 01:02:49: 9000000 INFO @ Tue, 30 Jun 2020 01:02:50: 20000000 INFO @ Tue, 30 Jun 2020 01:02:52: 15000000 INFO @ Tue, 30 Jun 2020 01:02:55: 10000000 INFO @ Tue, 30 Jun 2020 01:02:56: 21000000 INFO @ Tue, 30 Jun 2020 01:02:58: 16000000 INFO @ Tue, 30 Jun 2020 01:03:02: 11000000 INFO @ Tue, 30 Jun 2020 01:03:02: 22000000 INFO @ Tue, 30 Jun 2020 01:03:04: 17000000 INFO @ Tue, 30 Jun 2020 01:03:08: 23000000 INFO @ Tue, 30 Jun 2020 01:03:08: 12000000 INFO @ Tue, 30 Jun 2020 01:03:11: 18000000 INFO @ Tue, 30 Jun 2020 01:03:14: 24000000 INFO @ Tue, 30 Jun 2020 01:03:15: 13000000 INFO @ Tue, 30 Jun 2020 01:03:18: 19000000 INFO @ Tue, 30 Jun 2020 01:03:20: 25000000 INFO @ Tue, 30 Jun 2020 01:03:22: 14000000 INFO @ Tue, 30 Jun 2020 01:03:24: 20000000 INFO @ Tue, 30 Jun 2020 01:03:26: 26000000 INFO @ Tue, 30 Jun 2020 01:03:28: 15000000 INFO @ Tue, 30 Jun 2020 01:03:31: 21000000 INFO @ Tue, 30 Jun 2020 01:03:32: 27000000 INFO @ Tue, 30 Jun 2020 01:03:35: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 01:03:35: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 01:03:35: #1 total tags in treatment: 27313941 INFO @ Tue, 30 Jun 2020 01:03:35: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:03:35: #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 01:03:35: 16000000 INFO @ Tue, 30 Jun 2020 01:03:35: #1 tags after filtering in treatment: 27313941 INFO @ Tue, 30 Jun 2020 01:03:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:03:35: #1 finished! INFO @ Tue, 30 Jun 2020 01:03:35: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:03:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:03:37: #2 number of paired peaks: 54 WARNING @ Tue, 30 Jun 2020 01:03:37: Too few paired peaks (54) 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 01:03:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.05_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/SRX5343141/SRX5343141.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:03:37: 22000000 INFO @ Tue, 30 Jun 2020 01:03:41: 17000000 INFO @ Tue, 30 Jun 2020 01:03:43: 23000000 INFO @ Tue, 30 Jun 2020 01:03:48: 18000000 INFO @ Tue, 30 Jun 2020 01:03:50: 24000000 INFO @ Tue, 30 Jun 2020 01:03:54: 19000000 INFO @ Tue, 30 Jun 2020 01:03:56: 25000000 INFO @ Tue, 30 Jun 2020 01:04:00: 20000000 INFO @ Tue, 30 Jun 2020 01:04:02: 26000000 INFO @ Tue, 30 Jun 2020 01:04:06: 21000000 INFO @ Tue, 30 Jun 2020 01:04:09: 27000000 INFO @ Tue, 30 Jun 2020 01:04:11: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 01:04:11: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 01:04:11: #1 total tags in treatment: 27313941 INFO @ Tue, 30 Jun 2020 01:04:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:04:11: #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 01:04:12: #1 tags after filtering in treatment: 27313941 INFO @ Tue, 30 Jun 2020 01:04:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:04:12: #1 finished! INFO @ Tue, 30 Jun 2020 01:04:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:04:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:04:12: 22000000 INFO @ Tue, 30 Jun 2020 01:04:13: #2 number of paired peaks: 54 WARNING @ Tue, 30 Jun 2020 01:04:13: Too few paired peaks (54) 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 01:04:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.10_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/SRX5343141/SRX5343141.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:04:18: 23000000 INFO @ Tue, 30 Jun 2020 01:04:24: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:04:29: 25000000 INFO @ Tue, 30 Jun 2020 01:04:35: 26000000 INFO @ Tue, 30 Jun 2020 01:04:40: 27000000 INFO @ Tue, 30 Jun 2020 01:04:42: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 01:04:42: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 01:04:42: #1 total tags in treatment: 27313941 INFO @ Tue, 30 Jun 2020 01:04:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:04:42: #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 01:04:43: #1 tags after filtering in treatment: 27313941 INFO @ Tue, 30 Jun 2020 01:04:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:04:43: #1 finished! INFO @ Tue, 30 Jun 2020 01:04:43: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:04:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:04:45: #2 number of paired peaks: 54 WARNING @ Tue, 30 Jun 2020 01:04:45: Too few paired peaks (54) 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 01:04:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.20_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/SRX5343141/SRX5343141.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343141/SRX5343141.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。