Job ID = 6528290 SRX = SRX5287825 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:57:24 prefetch.2.10.7: 1) Downloading 'SRR8483056'... 2020-06-29T14:57:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:01:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:01:01 prefetch.2.10.7: 1) 'SRR8483056' was downloaded successfully 2020-06-29T15:01:01 prefetch.2.10.7: 'SRR8483056' has 0 unresolved dependencies Read 26790115 spots for SRR8483056/SRR8483056.sra Written 26790115 spots for SRR8483056/SRR8483056.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:12:19 26790115 reads; of these: 26790115 (100.00%) were unpaired; of these: 798495 (2.98%) aligned 0 times 19275162 (71.95%) aligned exactly 1 time 6716458 (25.07%) aligned >1 times 97.02% overall alignment rate Time searching: 00:12:20 Overall time: 00:12:20 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] 2721599 / 25991620 = 0.1047 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 00:33:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.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 00:33:54: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:33:54: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:02: 1000000 INFO @ Tue, 30 Jun 2020 00:34:09: 2000000 INFO @ Tue, 30 Jun 2020 00:34:17: 3000000 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 00:34:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.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 00:34:24: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:24: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:25: 4000000 INFO @ Tue, 30 Jun 2020 00:34:32: 1000000 INFO @ Tue, 30 Jun 2020 00:34:33: 5000000 INFO @ Tue, 30 Jun 2020 00:34:41: 2000000 INFO @ Tue, 30 Jun 2020 00:34:41: 6000000 INFO @ Tue, 30 Jun 2020 00:34:49: 3000000 INFO @ Tue, 30 Jun 2020 00:34:50: 7000000 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 00:34:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.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 00:34:54: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:54: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:58: 4000000 INFO @ Tue, 30 Jun 2020 00:34:58: 8000000 INFO @ Tue, 30 Jun 2020 00:35:02: 1000000 INFO @ Tue, 30 Jun 2020 00:35:06: 5000000 INFO @ Tue, 30 Jun 2020 00:35:07: 9000000 INFO @ Tue, 30 Jun 2020 00:35:10: 2000000 INFO @ Tue, 30 Jun 2020 00:35:15: 10000000 INFO @ Tue, 30 Jun 2020 00:35:15: 6000000 INFO @ Tue, 30 Jun 2020 00:35:18: 3000000 INFO @ Tue, 30 Jun 2020 00:35:23: 11000000 INFO @ Tue, 30 Jun 2020 00:35:23: 7000000 INFO @ Tue, 30 Jun 2020 00:35:26: 4000000 INFO @ Tue, 30 Jun 2020 00:35:32: 12000000 INFO @ Tue, 30 Jun 2020 00:35:32: 8000000 INFO @ Tue, 30 Jun 2020 00:35:34: 5000000 INFO @ Tue, 30 Jun 2020 00:35:40: 13000000 INFO @ Tue, 30 Jun 2020 00:35:41: 9000000 INFO @ Tue, 30 Jun 2020 00:35:42: 6000000 INFO @ Tue, 30 Jun 2020 00:35:48: 14000000 INFO @ Tue, 30 Jun 2020 00:35:49: 10000000 INFO @ Tue, 30 Jun 2020 00:35:50: 7000000 INFO @ Tue, 30 Jun 2020 00:35:57: 15000000 INFO @ Tue, 30 Jun 2020 00:35:58: 11000000 INFO @ Tue, 30 Jun 2020 00:35:58: 8000000 INFO @ Tue, 30 Jun 2020 00:36:05: 16000000 INFO @ Tue, 30 Jun 2020 00:36:07: 12000000 INFO @ Tue, 30 Jun 2020 00:36:07: 9000000 INFO @ Tue, 30 Jun 2020 00:36:13: 17000000 INFO @ Tue, 30 Jun 2020 00:36:15: 10000000 INFO @ Tue, 30 Jun 2020 00:36:15: 13000000 INFO @ Tue, 30 Jun 2020 00:36:22: 18000000 INFO @ Tue, 30 Jun 2020 00:36:23: 11000000 INFO @ Tue, 30 Jun 2020 00:36:23: 14000000 INFO @ Tue, 30 Jun 2020 00:36:30: 19000000 INFO @ Tue, 30 Jun 2020 00:36:31: 12000000 INFO @ Tue, 30 Jun 2020 00:36:32: 15000000 INFO @ Tue, 30 Jun 2020 00:36:38: 13000000 INFO @ Tue, 30 Jun 2020 00:36:39: 20000000 INFO @ Tue, 30 Jun 2020 00:36:40: 16000000 INFO @ Tue, 30 Jun 2020 00:36:46: 14000000 INFO @ Tue, 30 Jun 2020 00:36:47: 21000000 INFO @ Tue, 30 Jun 2020 00:36:49: 17000000 INFO @ Tue, 30 Jun 2020 00:36:54: 15000000 INFO @ Tue, 30 Jun 2020 00:36:56: 22000000 INFO @ Tue, 30 Jun 2020 00:36:57: 18000000 INFO @ Tue, 30 Jun 2020 00:37:02: 16000000 INFO @ Tue, 30 Jun 2020 00:37:04: 23000000 INFO @ Tue, 30 Jun 2020 00:37:06: 19000000 INFO @ Tue, 30 Jun 2020 00:37:07: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:37:07: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:37:07: #1 total tags in treatment: 23270021 INFO @ Tue, 30 Jun 2020 00:37:07: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:37:07: #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 00:37:07: #1 tags after filtering in treatment: 23270021 INFO @ Tue, 30 Jun 2020 00:37:07: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:37:07: #1 finished! INFO @ Tue, 30 Jun 2020 00:37:07: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:37:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:37:09: #2 number of paired peaks: 54 WARNING @ Tue, 30 Jun 2020 00:37:09: 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 00:37:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.05_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/SRX5287825/SRX5287825.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.05_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 00:37:11: 17000000 INFO @ Tue, 30 Jun 2020 00:37:15: 20000000 INFO @ Tue, 30 Jun 2020 00:37:20: 18000000 INFO @ Tue, 30 Jun 2020 00:37:23: 21000000 INFO @ Tue, 30 Jun 2020 00:37:28: 19000000 INFO @ Tue, 30 Jun 2020 00:37:32: 22000000 INFO @ Tue, 30 Jun 2020 00:37:36: 20000000 INFO @ Tue, 30 Jun 2020 00:37:40: 23000000 INFO @ Tue, 30 Jun 2020 00:37:42: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:37:42: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:37:42: #1 total tags in treatment: 23270021 INFO @ Tue, 30 Jun 2020 00:37:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:37:42: #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 00:37:43: #1 tags after filtering in treatment: 23270021 INFO @ Tue, 30 Jun 2020 00:37:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:37:43: #1 finished! INFO @ Tue, 30 Jun 2020 00:37:43: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:37:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:37:44: 21000000 INFO @ Tue, 30 Jun 2020 00:37:44: #2 number of paired peaks: 54 WARNING @ Tue, 30 Jun 2020 00:37:44: 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 00:37:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.10_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/SRX5287825/SRX5287825.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:37:51: 22000000 INFO @ Tue, 30 Jun 2020 00:37:58: 23000000 INFO @ Tue, 30 Jun 2020 00:38:00: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:38:00: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:38:00: #1 total tags in treatment: 23270021 INFO @ Tue, 30 Jun 2020 00:38:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:38:00: #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 00:38:01: #1 tags after filtering in treatment: 23270021 INFO @ Tue, 30 Jun 2020 00:38:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:38:01: #1 finished! INFO @ Tue, 30 Jun 2020 00:38:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:38:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:38:02: #2 number of paired peaks: 54 WARNING @ Tue, 30 Jun 2020 00:38:02: 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 00:38:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.20_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/SRX5287825/SRX5287825.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287825/SRX5287825.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。