Job ID = 6527725 SRX = SRX2564138 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:13:33 prefetch.2.10.7: 1) Downloading 'SRR5259257'... 2020-06-29T13:13:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:20:25 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:20:25 prefetch.2.10.7: 1) 'SRR5259257' was downloaded successfully 2020-06-29T13:20:25 prefetch.2.10.7: 'SRR5259257' has 0 unresolved dependencies Read 50189794 spots for SRR5259257/SRR5259257.sra Written 50189794 spots for SRR5259257/SRR5259257.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: 00:19:15 50189794 reads; of these: 50189794 (100.00%) were unpaired; of these: 3013860 (6.00%) aligned 0 times 37885301 (75.48%) aligned exactly 1 time 9290633 (18.51%) aligned >1 times 94.00% overall alignment rate Time searching: 00:19:15 Overall time: 00:19:15 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] 11877459 / 47175934 = 0.2518 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 23:11:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.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 23:11:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:11:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:11:38: 1000000 INFO @ Mon, 29 Jun 2020 23:11:43: 2000000 INFO @ Mon, 29 Jun 2020 23:11:48: 3000000 INFO @ Mon, 29 Jun 2020 23:11:53: 4000000 INFO @ Mon, 29 Jun 2020 23:11:59: 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 23:12:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.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 23:12:02: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:12:02: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:12:04: 6000000 INFO @ Mon, 29 Jun 2020 23:12:07: 1000000 INFO @ Mon, 29 Jun 2020 23:12:09: 7000000 INFO @ Mon, 29 Jun 2020 23:12:13: 2000000 INFO @ Mon, 29 Jun 2020 23:12:14: 8000000 INFO @ Mon, 29 Jun 2020 23:12:18: 3000000 INFO @ Mon, 29 Jun 2020 23:12:20: 9000000 INFO @ Mon, 29 Jun 2020 23:12:23: 4000000 INFO @ Mon, 29 Jun 2020 23:12:25: 10000000 INFO @ Mon, 29 Jun 2020 23:12:29: 5000000 INFO @ Mon, 29 Jun 2020 23:12:30: 11000000 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 23:12:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.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 23:12:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:12:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:12:34: 6000000 INFO @ Mon, 29 Jun 2020 23:12:36: 12000000 INFO @ Mon, 29 Jun 2020 23:12:38: 1000000 INFO @ Mon, 29 Jun 2020 23:12:39: 7000000 INFO @ Mon, 29 Jun 2020 23:12:41: 13000000 INFO @ Mon, 29 Jun 2020 23:12:43: 2000000 INFO @ Mon, 29 Jun 2020 23:12:44: 8000000 INFO @ Mon, 29 Jun 2020 23:12:46: 14000000 INFO @ Mon, 29 Jun 2020 23:12:48: 3000000 INFO @ Mon, 29 Jun 2020 23:12:50: 9000000 INFO @ Mon, 29 Jun 2020 23:12:52: 15000000 INFO @ Mon, 29 Jun 2020 23:12:53: 4000000 INFO @ Mon, 29 Jun 2020 23:12:55: 10000000 INFO @ Mon, 29 Jun 2020 23:12:57: 16000000 INFO @ Mon, 29 Jun 2020 23:12:59: 5000000 INFO @ Mon, 29 Jun 2020 23:13:00: 11000000 INFO @ Mon, 29 Jun 2020 23:13:02: 17000000 INFO @ Mon, 29 Jun 2020 23:13:04: 6000000 INFO @ Mon, 29 Jun 2020 23:13:05: 12000000 INFO @ Mon, 29 Jun 2020 23:13:07: 18000000 INFO @ Mon, 29 Jun 2020 23:13:09: 7000000 INFO @ Mon, 29 Jun 2020 23:13:11: 13000000 INFO @ Mon, 29 Jun 2020 23:13:13: 19000000 INFO @ Mon, 29 Jun 2020 23:13:14: 8000000 INFO @ Mon, 29 Jun 2020 23:13:16: 14000000 INFO @ Mon, 29 Jun 2020 23:13:18: 20000000 INFO @ Mon, 29 Jun 2020 23:13:20: 9000000 INFO @ Mon, 29 Jun 2020 23:13:21: 15000000 INFO @ Mon, 29 Jun 2020 23:13:23: 21000000 INFO @ Mon, 29 Jun 2020 23:13:25: 10000000 INFO @ Mon, 29 Jun 2020 23:13:26: 16000000 INFO @ Mon, 29 Jun 2020 23:13:28: 22000000 INFO @ Mon, 29 Jun 2020 23:13:30: 11000000 INFO @ Mon, 29 Jun 2020 23:13:32: 17000000 INFO @ Mon, 29 Jun 2020 23:13:34: 23000000 INFO @ Mon, 29 Jun 2020 23:13:35: 12000000 INFO @ Mon, 29 Jun 2020 23:13:37: 18000000 INFO @ Mon, 29 Jun 2020 23:13:39: 24000000 INFO @ Mon, 29 Jun 2020 23:13:41: 13000000 INFO @ Mon, 29 Jun 2020 23:13:42: 19000000 INFO @ Mon, 29 Jun 2020 23:13:44: 25000000 INFO @ Mon, 29 Jun 2020 23:13:46: 14000000 INFO @ Mon, 29 Jun 2020 23:13:47: 20000000 INFO @ Mon, 29 Jun 2020 23:13:50: 26000000 INFO @ Mon, 29 Jun 2020 23:13:51: 15000000 INFO @ Mon, 29 Jun 2020 23:13:53: 21000000 INFO @ Mon, 29 Jun 2020 23:13:55: 27000000 INFO @ Mon, 29 Jun 2020 23:13:56: 16000000 INFO @ Mon, 29 Jun 2020 23:13:58: 22000000 INFO @ Mon, 29 Jun 2020 23:14:00: 28000000 INFO @ Mon, 29 Jun 2020 23:14:02: 17000000 INFO @ Mon, 29 Jun 2020 23:14:03: 23000000 INFO @ Mon, 29 Jun 2020 23:14:05: 29000000 INFO @ Mon, 29 Jun 2020 23:14:07: 18000000 INFO @ Mon, 29 Jun 2020 23:14:08: 24000000 INFO @ Mon, 29 Jun 2020 23:14:11: 30000000 INFO @ Mon, 29 Jun 2020 23:14:12: 19000000 INFO @ Mon, 29 Jun 2020 23:14:14: 25000000 INFO @ Mon, 29 Jun 2020 23:14:16: 31000000 INFO @ Mon, 29 Jun 2020 23:14:17: 20000000 INFO @ Mon, 29 Jun 2020 23:14:19: 26000000 INFO @ Mon, 29 Jun 2020 23:14:21: 32000000 INFO @ Mon, 29 Jun 2020 23:14:23: 21000000 INFO @ Mon, 29 Jun 2020 23:14:25: 27000000 INFO @ Mon, 29 Jun 2020 23:14:27: 33000000 INFO @ Mon, 29 Jun 2020 23:14:28: 22000000 INFO @ Mon, 29 Jun 2020 23:14:31: 28000000 INFO @ Mon, 29 Jun 2020 23:14:32: 34000000 INFO @ Mon, 29 Jun 2020 23:14:33: 23000000 INFO @ Mon, 29 Jun 2020 23:14:37: 29000000 INFO @ Mon, 29 Jun 2020 23:14:37: 35000000 INFO @ Mon, 29 Jun 2020 23:14:38: 24000000 INFO @ Mon, 29 Jun 2020 23:14:39: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:14:39: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:14:39: #1 total tags in treatment: 35298475 INFO @ Mon, 29 Jun 2020 23:14:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:14:39: #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 23:14:40: #1 tags after filtering in treatment: 35298475 INFO @ Mon, 29 Jun 2020 23:14:40: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:14:40: #1 finished! INFO @ Mon, 29 Jun 2020 23:14:40: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:14:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:14:42: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 23:14:42: Too few paired peaks (69) 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 23:14:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.05_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/SRX2564138/SRX2564138.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:14:42: 30000000 INFO @ Mon, 29 Jun 2020 23:14:44: 25000000 INFO @ Mon, 29 Jun 2020 23:14:48: 31000000 INFO @ Mon, 29 Jun 2020 23:14:49: 26000000 INFO @ Mon, 29 Jun 2020 23:14:53: 32000000 INFO @ Mon, 29 Jun 2020 23:14:54: 27000000 INFO @ Mon, 29 Jun 2020 23:14:58: 33000000 INFO @ Mon, 29 Jun 2020 23:14:59: 28000000 INFO @ Mon, 29 Jun 2020 23:15:03: 34000000 INFO @ Mon, 29 Jun 2020 23:15:05: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:15:09: 35000000 INFO @ Mon, 29 Jun 2020 23:15:10: 30000000 INFO @ Mon, 29 Jun 2020 23:15:10: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:15:10: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:15:10: #1 total tags in treatment: 35298475 INFO @ Mon, 29 Jun 2020 23:15:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:15:10: #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 23:15:11: #1 tags after filtering in treatment: 35298475 INFO @ Mon, 29 Jun 2020 23:15:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:15:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:15:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:15:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:15:13: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 23:15:13: Too few paired peaks (69) 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 23:15:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:15:15: 31000000 INFO @ Mon, 29 Jun 2020 23:15:20: 32000000 INFO @ Mon, 29 Jun 2020 23:15:25: 33000000 INFO @ Mon, 29 Jun 2020 23:15:30: 34000000 INFO @ Mon, 29 Jun 2020 23:15:35: 35000000 INFO @ Mon, 29 Jun 2020 23:15:37: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:15:37: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:15:37: #1 total tags in treatment: 35298475 INFO @ Mon, 29 Jun 2020 23:15:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:15:37: #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 23:15:38: #1 tags after filtering in treatment: 35298475 INFO @ Mon, 29 Jun 2020 23:15:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:15:38: #1 finished! INFO @ Mon, 29 Jun 2020 23:15:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:15:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:15:40: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 23:15:40: Too few paired peaks (69) 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 23:15:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.20_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/SRX2564138/SRX2564138.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564138/SRX2564138.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。