Job ID = 6527943 SRX = SRX331404 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:10:06 prefetch.2.10.7: 1) Downloading 'SRR947641'... 2020-06-29T14:10:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:13:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:13:33 prefetch.2.10.7: 1) 'SRR947641' was downloaded successfully Read 23568994 spots for SRR947641/SRR947641.sra Written 23568994 spots for SRR947641/SRR947641.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: 00:08:08 23568994 reads; of these: 23568994 (100.00%) were unpaired; of these: 1501498 (6.37%) aligned 0 times 15631006 (66.32%) aligned exactly 1 time 6436490 (27.31%) aligned >1 times 93.63% overall alignment rate Time searching: 00:08:08 Overall time: 00:08:08 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] 3715407 / 22067496 = 0.1684 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 23:33:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.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 23:33:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:33:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:33:33: 1000000 INFO @ Mon, 29 Jun 2020 23:33:41: 2000000 INFO @ Mon, 29 Jun 2020 23:33:48: 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 @ Mon, 29 Jun 2020 23:33:55: 4000000 INFO @ Mon, 29 Jun 2020 23:33:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.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 23:33:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:33:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:34:02: 5000000 INFO @ Mon, 29 Jun 2020 23:34:04: 1000000 INFO @ Mon, 29 Jun 2020 23:34:10: 6000000 INFO @ Mon, 29 Jun 2020 23:34:11: 2000000 INFO @ Mon, 29 Jun 2020 23:34:18: 7000000 INFO @ Mon, 29 Jun 2020 23:34:18: 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 23:34:25: 8000000 INFO @ Mon, 29 Jun 2020 23:34:26: 4000000 INFO @ Mon, 29 Jun 2020 23:34:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.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 23:34:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:34:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:34:33: 5000000 INFO @ Mon, 29 Jun 2020 23:34:33: 9000000 INFO @ Mon, 29 Jun 2020 23:34:34: 1000000 INFO @ Mon, 29 Jun 2020 23:34:40: 6000000 INFO @ Mon, 29 Jun 2020 23:34:41: 10000000 INFO @ Mon, 29 Jun 2020 23:34:42: 2000000 INFO @ Mon, 29 Jun 2020 23:34:48: 7000000 INFO @ Mon, 29 Jun 2020 23:34:48: 11000000 INFO @ Mon, 29 Jun 2020 23:34:50: 3000000 INFO @ Mon, 29 Jun 2020 23:34:55: 8000000 INFO @ Mon, 29 Jun 2020 23:34:56: 12000000 INFO @ Mon, 29 Jun 2020 23:34:57: 4000000 INFO @ Mon, 29 Jun 2020 23:35:02: 9000000 INFO @ Mon, 29 Jun 2020 23:35:04: 13000000 INFO @ Mon, 29 Jun 2020 23:35:05: 5000000 INFO @ Mon, 29 Jun 2020 23:35:10: 10000000 INFO @ Mon, 29 Jun 2020 23:35:11: 14000000 INFO @ Mon, 29 Jun 2020 23:35:12: 6000000 INFO @ Mon, 29 Jun 2020 23:35:17: 11000000 INFO @ Mon, 29 Jun 2020 23:35:19: 15000000 INFO @ Mon, 29 Jun 2020 23:35:20: 7000000 INFO @ Mon, 29 Jun 2020 23:35:24: 12000000 INFO @ Mon, 29 Jun 2020 23:35:26: 16000000 INFO @ Mon, 29 Jun 2020 23:35:28: 8000000 INFO @ Mon, 29 Jun 2020 23:35:32: 13000000 INFO @ Mon, 29 Jun 2020 23:35:34: 17000000 INFO @ Mon, 29 Jun 2020 23:35:35: 9000000 INFO @ Mon, 29 Jun 2020 23:35:39: 14000000 INFO @ Mon, 29 Jun 2020 23:35:41: 18000000 INFO @ Mon, 29 Jun 2020 23:35:43: 10000000 INFO @ Mon, 29 Jun 2020 23:35:44: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:35:44: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:35:44: #1 total tags in treatment: 18352089 INFO @ Mon, 29 Jun 2020 23:35:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:35:44: #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 23:35:44: #1 tags after filtering in treatment: 18352089 INFO @ Mon, 29 Jun 2020 23:35:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:35:44: #1 finished! INFO @ Mon, 29 Jun 2020 23:35:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:35:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:35:46: #2 number of paired peaks: 47 WARNING @ Mon, 29 Jun 2020 23:35:46: Too few paired peaks (47) 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 23:35:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.05_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/SRX331404/SRX331404.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:35:46: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:35:50: 11000000 INFO @ Mon, 29 Jun 2020 23:35:53: 16000000 INFO @ Mon, 29 Jun 2020 23:35:58: 12000000 INFO @ Mon, 29 Jun 2020 23:36:01: 17000000 INFO @ Mon, 29 Jun 2020 23:36:05: 13000000 INFO @ Mon, 29 Jun 2020 23:36:08: 18000000 INFO @ Mon, 29 Jun 2020 23:36:11: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:36:11: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:36:11: #1 total tags in treatment: 18352089 INFO @ Mon, 29 Jun 2020 23:36:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:36:11: #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 23:36:11: #1 tags after filtering in treatment: 18352089 INFO @ Mon, 29 Jun 2020 23:36:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:36:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:36:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:36:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:36:12: #2 number of paired peaks: 47 WARNING @ Mon, 29 Jun 2020 23:36:12: Too few paired peaks (47) 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 23:36:12: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 23:36:12: 14000000 cut: /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.10_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/SRX331404/SRX331404.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:36:19: 15000000 INFO @ Mon, 29 Jun 2020 23:36:26: 16000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:36:34: 17000000 INFO @ Mon, 29 Jun 2020 23:36:41: 18000000 INFO @ Mon, 29 Jun 2020 23:36:43: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:36:43: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:36:43: #1 total tags in treatment: 18352089 INFO @ Mon, 29 Jun 2020 23:36:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:36:43: #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 23:36:44: #1 tags after filtering in treatment: 18352089 INFO @ Mon, 29 Jun 2020 23:36:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:36:44: #1 finished! INFO @ Mon, 29 Jun 2020 23:36:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:36:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:36:45: #2 number of paired peaks: 47 WARNING @ Mon, 29 Jun 2020 23:36:45: Too few paired peaks (47) 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 23:36:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.20_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/SRX331404/SRX331404.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331404/SRX331404.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling