Job ID = 6527922 SRX = SRX3279755 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:01:06 prefetch.2.10.7: 1) Downloading 'SRR6168905'... 2020-06-29T14:01:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:05:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:05:09 prefetch.2.10.7: 1) 'SRR6168905' was downloaded successfully 2020-06-29T14:05:09 prefetch.2.10.7: 'SRR6168905' has 0 unresolved dependencies Read 32686531 spots for SRR6168905/SRR6168905.sra Written 32686531 spots for SRR6168905/SRR6168905.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: 00:11:44 32686531 reads; of these: 32686531 (100.00%) were unpaired; of these: 633692 (1.94%) aligned 0 times 27370608 (83.74%) aligned exactly 1 time 4682231 (14.32%) aligned >1 times 98.06% overall alignment rate Time searching: 00:11:44 Overall time: 00:11:44 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] 2528782 / 32052839 = 0.0789 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 23:43:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.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 23:43:01: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:01: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:08: 1000000 INFO @ Mon, 29 Jun 2020 23:43:14: 2000000 INFO @ Mon, 29 Jun 2020 23:43:20: 3000000 INFO @ Mon, 29 Jun 2020 23:43:26: 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 @ Mon, 29 Jun 2020 23:43:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.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 23:43:31: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:31: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:33: 5000000 INFO @ Mon, 29 Jun 2020 23:43:40: 1000000 INFO @ Mon, 29 Jun 2020 23:43:41: 6000000 INFO @ Mon, 29 Jun 2020 23:43:48: 7000000 INFO @ Mon, 29 Jun 2020 23:43:48: 2000000 INFO @ Mon, 29 Jun 2020 23:43:56: 8000000 INFO @ Mon, 29 Jun 2020 23:43:57: 3000000 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 23:44:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.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 23:44:01: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:44:01: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:44:04: 9000000 INFO @ Mon, 29 Jun 2020 23:44:06: 4000000 INFO @ Mon, 29 Jun 2020 23:44:10: 1000000 INFO @ Mon, 29 Jun 2020 23:44:12: 10000000 INFO @ Mon, 29 Jun 2020 23:44:15: 5000000 INFO @ Mon, 29 Jun 2020 23:44:19: 2000000 INFO @ Mon, 29 Jun 2020 23:44:20: 11000000 INFO @ Mon, 29 Jun 2020 23:44:23: 6000000 INFO @ Mon, 29 Jun 2020 23:44:28: 12000000 INFO @ Mon, 29 Jun 2020 23:44:28: 3000000 INFO @ Mon, 29 Jun 2020 23:44:32: 7000000 INFO @ Mon, 29 Jun 2020 23:44:36: 13000000 INFO @ Mon, 29 Jun 2020 23:44:37: 4000000 INFO @ Mon, 29 Jun 2020 23:44:41: 8000000 INFO @ Mon, 29 Jun 2020 23:44:43: 14000000 INFO @ Mon, 29 Jun 2020 23:44:46: 5000000 INFO @ Mon, 29 Jun 2020 23:44:50: 9000000 INFO @ Mon, 29 Jun 2020 23:44:51: 15000000 INFO @ Mon, 29 Jun 2020 23:44:55: 6000000 INFO @ Mon, 29 Jun 2020 23:44:59: 10000000 INFO @ Mon, 29 Jun 2020 23:44:59: 16000000 INFO @ Mon, 29 Jun 2020 23:45:04: 7000000 INFO @ Mon, 29 Jun 2020 23:45:07: 17000000 INFO @ Mon, 29 Jun 2020 23:45:08: 11000000 INFO @ Mon, 29 Jun 2020 23:45:13: 8000000 INFO @ Mon, 29 Jun 2020 23:45:15: 18000000 INFO @ Mon, 29 Jun 2020 23:45:17: 12000000 INFO @ Mon, 29 Jun 2020 23:45:22: 9000000 INFO @ Mon, 29 Jun 2020 23:45:23: 19000000 INFO @ Mon, 29 Jun 2020 23:45:25: 13000000 INFO @ Mon, 29 Jun 2020 23:45:30: 10000000 INFO @ Mon, 29 Jun 2020 23:45:31: 20000000 INFO @ Mon, 29 Jun 2020 23:45:34: 14000000 INFO @ Mon, 29 Jun 2020 23:45:39: 21000000 INFO @ Mon, 29 Jun 2020 23:45:39: 11000000 INFO @ Mon, 29 Jun 2020 23:45:43: 15000000 INFO @ Mon, 29 Jun 2020 23:45:47: 22000000 INFO @ Mon, 29 Jun 2020 23:45:48: 12000000 INFO @ Mon, 29 Jun 2020 23:45:51: 16000000 INFO @ Mon, 29 Jun 2020 23:45:55: 23000000 INFO @ Mon, 29 Jun 2020 23:45:56: 13000000 INFO @ Mon, 29 Jun 2020 23:46:00: 17000000 INFO @ Mon, 29 Jun 2020 23:46:03: 24000000 INFO @ Mon, 29 Jun 2020 23:46:05: 14000000 INFO @ Mon, 29 Jun 2020 23:46:09: 18000000 INFO @ Mon, 29 Jun 2020 23:46:11: 25000000 INFO @ Mon, 29 Jun 2020 23:46:13: 15000000 INFO @ Mon, 29 Jun 2020 23:46:18: 19000000 INFO @ Mon, 29 Jun 2020 23:46:19: 26000000 INFO @ Mon, 29 Jun 2020 23:46:22: 16000000 INFO @ Mon, 29 Jun 2020 23:46:26: 20000000 INFO @ Mon, 29 Jun 2020 23:46:27: 27000000 INFO @ Mon, 29 Jun 2020 23:46:31: 17000000 INFO @ Mon, 29 Jun 2020 23:46:35: 28000000 INFO @ Mon, 29 Jun 2020 23:46:35: 21000000 INFO @ Mon, 29 Jun 2020 23:46:40: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:46:43: 29000000 INFO @ Mon, 29 Jun 2020 23:46:44: 22000000 INFO @ Mon, 29 Jun 2020 23:46:47: #1 tag size is determined as 79 bps INFO @ Mon, 29 Jun 2020 23:46:47: #1 tag size = 79 INFO @ Mon, 29 Jun 2020 23:46:47: #1 total tags in treatment: 29524057 INFO @ Mon, 29 Jun 2020 23:46:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:47: #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 23:46:47: #1 tags after filtering in treatment: 29524057 INFO @ Mon, 29 Jun 2020 23:46:47: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:47: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:47: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:47: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:49: 19000000 INFO @ Mon, 29 Jun 2020 23:46:49: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 23:46:49: Too few paired peaks (15) 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 23:46:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.05_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/SRX3279755/SRX3279755.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:52: 23000000 INFO @ Mon, 29 Jun 2020 23:46:58: 20000000 INFO @ Mon, 29 Jun 2020 23:47:01: 24000000 INFO @ Mon, 29 Jun 2020 23:47:07: 21000000 INFO @ Mon, 29 Jun 2020 23:47:09: 25000000 INFO @ Mon, 29 Jun 2020 23:47:16: 22000000 INFO @ Mon, 29 Jun 2020 23:47:18: 26000000 INFO @ Mon, 29 Jun 2020 23:47:25: 23000000 INFO @ Mon, 29 Jun 2020 23:47:26: 27000000 INFO @ Mon, 29 Jun 2020 23:47:34: 24000000 INFO @ Mon, 29 Jun 2020 23:47:35: 28000000 INFO @ Mon, 29 Jun 2020 23:47:43: 25000000 INFO @ Mon, 29 Jun 2020 23:47:43: 29000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:47:48: #1 tag size is determined as 79 bps INFO @ Mon, 29 Jun 2020 23:47:48: #1 tag size = 79 INFO @ Mon, 29 Jun 2020 23:47:48: #1 total tags in treatment: 29524057 INFO @ Mon, 29 Jun 2020 23:47:48: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:48: #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 23:47:48: #1 tags after filtering in treatment: 29524057 INFO @ Mon, 29 Jun 2020 23:47:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:48: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:50: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 23:47:50: Too few paired peaks (15) 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 23:47:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.10_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/SRX3279755/SRX3279755.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:47:51: 26000000 INFO @ Mon, 29 Jun 2020 23:47:59: 27000000 INFO @ Mon, 29 Jun 2020 23:48:07: 28000000 INFO @ Mon, 29 Jun 2020 23:48:15: 29000000 INFO @ Mon, 29 Jun 2020 23:48:19: #1 tag size is determined as 79 bps INFO @ Mon, 29 Jun 2020 23:48:19: #1 tag size = 79 INFO @ Mon, 29 Jun 2020 23:48:19: #1 total tags in treatment: 29524057 INFO @ Mon, 29 Jun 2020 23:48:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:48:19: #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 23:48:20: #1 tags after filtering in treatment: 29524057 INFO @ Mon, 29 Jun 2020 23:48:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:48:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:48:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:48:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:48:22: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 23:48:22: Too few paired peaks (15) 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 23:48:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.20_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/SRX3279755/SRX3279755.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279755/SRX3279755.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling