Job ID = 6528015 SRX = SRX3981613 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:04:37 prefetch.2.10.7: 1) Downloading 'SRR7050223'... 2020-06-29T14:04:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:05:59 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:05:59 prefetch.2.10.7: 'SRR7050223' is valid 2020-06-29T14:05:59 prefetch.2.10.7: 1) 'SRR7050223' was downloaded successfully 2020-06-29T14:05:59 prefetch.2.10.7: 'SRR7050223' has 0 unresolved dependencies Read 13806889 spots for SRR7050223/SRR7050223.sra Written 13806889 spots for SRR7050223/SRR7050223.sra 2020-06-29T14:06:55 prefetch.2.10.7: 1) Downloading 'SRR7050224'... 2020-06-29T14:06:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:08:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:08:32 prefetch.2.10.7: 'SRR7050224' is valid 2020-06-29T14:08:32 prefetch.2.10.7: 1) 'SRR7050224' was downloaded successfully 2020-06-29T14:08:32 prefetch.2.10.7: 'SRR7050224' has 0 unresolved dependencies Read 13546375 spots for SRR7050224/SRR7050224.sra Written 13546375 spots for SRR7050224/SRR7050224.sra 2020-06-29T14:09:28 prefetch.2.10.7: 1) Downloading 'SRR7050225'... 2020-06-29T14:09:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:10:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:10:51 prefetch.2.10.7: 'SRR7050225' is valid 2020-06-29T14:10:51 prefetch.2.10.7: 1) 'SRR7050225' was downloaded successfully 2020-06-29T14:10:51 prefetch.2.10.7: 'SRR7050225' has 0 unresolved dependencies Read 13796625 spots for SRR7050225/SRR7050225.sra Written 13796625 spots for SRR7050225/SRR7050225.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: 00:11:51 41149889 reads; of these: 41149889 (100.00%) were unpaired; of these: 1115101 (2.71%) aligned 0 times 31252479 (75.95%) aligned exactly 1 time 8782309 (21.34%) aligned >1 times 97.29% overall alignment rate Time searching: 00:11:51 Overall time: 00:11:51 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 20 files... [bam_rmdupse_core] 4937056 / 40034788 = 0.1233 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 23:42:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.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 23:42:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:42:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:42:13: 1000000 INFO @ Mon, 29 Jun 2020 23:42:19: 2000000 INFO @ Mon, 29 Jun 2020 23:42:24: 3000000 INFO @ Mon, 29 Jun 2020 23:42:30: 4000000 INFO @ Mon, 29 Jun 2020 23:42:35: 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 23:42:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.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 23:42:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:42:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:42:42: 6000000 INFO @ Mon, 29 Jun 2020 23:42:45: 1000000 INFO @ Mon, 29 Jun 2020 23:42:48: 7000000 INFO @ Mon, 29 Jun 2020 23:42:52: 2000000 INFO @ Mon, 29 Jun 2020 23:42:55: 8000000 INFO @ Mon, 29 Jun 2020 23:43:00: 3000000 INFO @ Mon, 29 Jun 2020 23:43:01: 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 @ Mon, 29 Jun 2020 23:43:07: 4000000 INFO @ Mon, 29 Jun 2020 23:43:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.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 23:43:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:08: 10000000 INFO @ Mon, 29 Jun 2020 23:43:15: 11000000 INFO @ Mon, 29 Jun 2020 23:43:15: 5000000 INFO @ Mon, 29 Jun 2020 23:43:16: 1000000 INFO @ Mon, 29 Jun 2020 23:43:22: 12000000 INFO @ Mon, 29 Jun 2020 23:43:23: 2000000 INFO @ Mon, 29 Jun 2020 23:43:24: 6000000 INFO @ Mon, 29 Jun 2020 23:43:29: 13000000 INFO @ Mon, 29 Jun 2020 23:43:30: 3000000 INFO @ Mon, 29 Jun 2020 23:43:32: 7000000 INFO @ Mon, 29 Jun 2020 23:43:36: 14000000 INFO @ Mon, 29 Jun 2020 23:43:37: 4000000 INFO @ Mon, 29 Jun 2020 23:43:39: 8000000 INFO @ Mon, 29 Jun 2020 23:43:43: 15000000 INFO @ Mon, 29 Jun 2020 23:43:43: 5000000 INFO @ Mon, 29 Jun 2020 23:43:47: 9000000 INFO @ Mon, 29 Jun 2020 23:43:50: 16000000 INFO @ Mon, 29 Jun 2020 23:43:50: 6000000 INFO @ Mon, 29 Jun 2020 23:43:55: 10000000 INFO @ Mon, 29 Jun 2020 23:43:57: 17000000 INFO @ Mon, 29 Jun 2020 23:43:57: 7000000 INFO @ Mon, 29 Jun 2020 23:44:03: 11000000 INFO @ Mon, 29 Jun 2020 23:44:04: 18000000 INFO @ Mon, 29 Jun 2020 23:44:04: 8000000 INFO @ Mon, 29 Jun 2020 23:44:10: 9000000 INFO @ Mon, 29 Jun 2020 23:44:10: 19000000 INFO @ Mon, 29 Jun 2020 23:44:10: 12000000 INFO @ Mon, 29 Jun 2020 23:44:17: 10000000 INFO @ Mon, 29 Jun 2020 23:44:17: 20000000 INFO @ Mon, 29 Jun 2020 23:44:18: 13000000 INFO @ Mon, 29 Jun 2020 23:44:24: 11000000 INFO @ Mon, 29 Jun 2020 23:44:24: 21000000 INFO @ Mon, 29 Jun 2020 23:44:26: 14000000 INFO @ Mon, 29 Jun 2020 23:44:30: 12000000 INFO @ Mon, 29 Jun 2020 23:44:31: 22000000 INFO @ Mon, 29 Jun 2020 23:44:34: 15000000 INFO @ Mon, 29 Jun 2020 23:44:37: 13000000 INFO @ Mon, 29 Jun 2020 23:44:38: 23000000 INFO @ Mon, 29 Jun 2020 23:44:42: 16000000 INFO @ Mon, 29 Jun 2020 23:44:44: 14000000 INFO @ Mon, 29 Jun 2020 23:44:45: 24000000 INFO @ Mon, 29 Jun 2020 23:44:50: 17000000 INFO @ Mon, 29 Jun 2020 23:44:51: 15000000 INFO @ Mon, 29 Jun 2020 23:44:52: 25000000 INFO @ Mon, 29 Jun 2020 23:44:58: 16000000 INFO @ Mon, 29 Jun 2020 23:44:58: 18000000 INFO @ Mon, 29 Jun 2020 23:44:59: 26000000 INFO @ Mon, 29 Jun 2020 23:45:05: 17000000 INFO @ Mon, 29 Jun 2020 23:45:06: 19000000 INFO @ Mon, 29 Jun 2020 23:45:06: 27000000 INFO @ Mon, 29 Jun 2020 23:45:12: 18000000 INFO @ Mon, 29 Jun 2020 23:45:13: 28000000 INFO @ Mon, 29 Jun 2020 23:45:14: 20000000 INFO @ Mon, 29 Jun 2020 23:45:19: 19000000 INFO @ Mon, 29 Jun 2020 23:45:21: 29000000 INFO @ Mon, 29 Jun 2020 23:45:21: 21000000 INFO @ Mon, 29 Jun 2020 23:45:26: 20000000 INFO @ Mon, 29 Jun 2020 23:45:28: 30000000 INFO @ Mon, 29 Jun 2020 23:45:29: 22000000 INFO @ Mon, 29 Jun 2020 23:45:33: 21000000 INFO @ Mon, 29 Jun 2020 23:45:35: 31000000 INFO @ Mon, 29 Jun 2020 23:45:37: 23000000 INFO @ Mon, 29 Jun 2020 23:45:40: 22000000 INFO @ Mon, 29 Jun 2020 23:45:42: 32000000 INFO @ Mon, 29 Jun 2020 23:45:44: 24000000 INFO @ Mon, 29 Jun 2020 23:45:47: 23000000 INFO @ Mon, 29 Jun 2020 23:45:49: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:45:52: 25000000 INFO @ Mon, 29 Jun 2020 23:45:55: 24000000 INFO @ Mon, 29 Jun 2020 23:45:56: 34000000 INFO @ Mon, 29 Jun 2020 23:45:59: 26000000 INFO @ Mon, 29 Jun 2020 23:46:01: 25000000 INFO @ Mon, 29 Jun 2020 23:46:03: 35000000 INFO @ Mon, 29 Jun 2020 23:46:04: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:46:04: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:46:04: #1 total tags in treatment: 35097732 INFO @ Mon, 29 Jun 2020 23:46:04: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:04: #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 23:46:04: #1 tags after filtering in treatment: 35097732 INFO @ Mon, 29 Jun 2020 23:46:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:04: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:06: 27000000 INFO @ Mon, 29 Jun 2020 23:46:07: #2 number of paired peaks: 77 WARNING @ Mon, 29 Jun 2020 23:46:07: Too few paired peaks (77) 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 23:46:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.05_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/SRX3981613/SRX3981613.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:08: 26000000 INFO @ Mon, 29 Jun 2020 23:46:14: 28000000 INFO @ Mon, 29 Jun 2020 23:46:15: 27000000 INFO @ Mon, 29 Jun 2020 23:46:21: 29000000 INFO @ Mon, 29 Jun 2020 23:46:21: 28000000 INFO @ Mon, 29 Jun 2020 23:46:28: 29000000 INFO @ Mon, 29 Jun 2020 23:46:28: 30000000 INFO @ Mon, 29 Jun 2020 23:46:35: 30000000 INFO @ Mon, 29 Jun 2020 23:46:36: 31000000 INFO @ Mon, 29 Jun 2020 23:46:41: 31000000 INFO @ Mon, 29 Jun 2020 23:46:44: 32000000 INFO @ Mon, 29 Jun 2020 23:46:48: 32000000 INFO @ Mon, 29 Jun 2020 23:46:51: 33000000 INFO @ Mon, 29 Jun 2020 23:46:55: 33000000 INFO @ Mon, 29 Jun 2020 23:46:58: 34000000 INFO @ Mon, 29 Jun 2020 23:47:02: 34000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:47:06: 35000000 INFO @ Mon, 29 Jun 2020 23:47:07: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:47:07: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:47:07: #1 total tags in treatment: 35097732 INFO @ Mon, 29 Jun 2020 23:47:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:07: #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 23:47:07: #1 tags after filtering in treatment: 35097732 INFO @ Mon, 29 Jun 2020 23:47:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:07: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:09: 35000000 INFO @ Mon, 29 Jun 2020 23:47:09: #2 number of paired peaks: 77 WARNING @ Mon, 29 Jun 2020 23:47:09: Too few paired peaks (77) 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 23:47:09: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 23:47:09: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:47:09: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:47:09: #1 total tags in treatment: 35097732 INFO @ Mon, 29 Jun 2020 23:47:09: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cut: /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.10_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/SRX3981613/SRX3981613.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:47:10: #1 tags after filtering in treatment: 35097732 INFO @ Mon, 29 Jun 2020 23:47:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:10: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:12: #2 number of paired peaks: 77 WARNING @ Mon, 29 Jun 2020 23:47:12: Too few paired peaks (77) 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 23:47:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.20_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/SRX3981613/SRX3981613.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981613/SRX3981613.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling