Job ID = 6453165 SRX = SRX104980 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:06:23 prefetch.2.10.7: 1) Downloading 'SRR363424'... 2020-06-21T08:06:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:09:55 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:09:56 prefetch.2.10.7: 'SRR363424' is valid 2020-06-21T08:09:56 prefetch.2.10.7: 1) 'SRR363424' was downloaded successfully Read 22345104 spots for SRR363424/SRR363424.sra Written 22345104 spots for SRR363424/SRR363424.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: 00:04:40 22345104 reads; of these: 22345104 (100.00%) were unpaired; of these: 762994 (3.41%) aligned 0 times 17761295 (79.49%) aligned exactly 1 time 3820815 (17.10%) aligned >1 times 96.59% overall alignment rate Time searching: 00:04:40 Overall time: 00:04:40 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 2933535 / 21582110 = 0.1359 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 @ Sun, 21 Jun 2020 17:20:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.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 @ Sun, 21 Jun 2020 17:20:07: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:20:07: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:20:12: 1000000 INFO @ Sun, 21 Jun 2020 17:20:18: 2000000 INFO @ Sun, 21 Jun 2020 17:20:24: 3000000 INFO @ Sun, 21 Jun 2020 17:20:30: 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 @ Sun, 21 Jun 2020 17:20:35: 5000000 INFO @ Sun, 21 Jun 2020 17:20:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.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 @ Sun, 21 Jun 2020 17:20:37: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:20:37: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:20:41: 6000000 INFO @ Sun, 21 Jun 2020 17:20:43: 1000000 INFO @ Sun, 21 Jun 2020 17:20:48: 7000000 INFO @ Sun, 21 Jun 2020 17:20:49: 2000000 INFO @ Sun, 21 Jun 2020 17:20:54: 8000000 INFO @ Sun, 21 Jun 2020 17:20:55: 3000000 INFO @ Sun, 21 Jun 2020 17:21:00: 9000000 INFO @ Sun, 21 Jun 2020 17:21:01: 4000000 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 @ Sun, 21 Jun 2020 17:21:06: 10000000 INFO @ Sun, 21 Jun 2020 17:21:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.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 @ Sun, 21 Jun 2020 17:21:07: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:21:07: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:21:08: 5000000 INFO @ Sun, 21 Jun 2020 17:21:12: 11000000 INFO @ Sun, 21 Jun 2020 17:21:13: 1000000 INFO @ Sun, 21 Jun 2020 17:21:14: 6000000 INFO @ Sun, 21 Jun 2020 17:21:19: 12000000 INFO @ Sun, 21 Jun 2020 17:21:19: 2000000 INFO @ Sun, 21 Jun 2020 17:21:20: 7000000 INFO @ Sun, 21 Jun 2020 17:21:25: 13000000 INFO @ Sun, 21 Jun 2020 17:21:25: 3000000 INFO @ Sun, 21 Jun 2020 17:21:26: 8000000 INFO @ Sun, 21 Jun 2020 17:21:31: 14000000 INFO @ Sun, 21 Jun 2020 17:21:31: 4000000 INFO @ Sun, 21 Jun 2020 17:21:32: 9000000 INFO @ Sun, 21 Jun 2020 17:21:37: 15000000 INFO @ Sun, 21 Jun 2020 17:21:38: 5000000 INFO @ Sun, 21 Jun 2020 17:21:39: 10000000 INFO @ Sun, 21 Jun 2020 17:21:44: 6000000 INFO @ Sun, 21 Jun 2020 17:21:44: 16000000 INFO @ Sun, 21 Jun 2020 17:21:45: 11000000 INFO @ Sun, 21 Jun 2020 17:21:50: 7000000 INFO @ Sun, 21 Jun 2020 17:21:50: 17000000 INFO @ Sun, 21 Jun 2020 17:21:51: 12000000 INFO @ Sun, 21 Jun 2020 17:21:56: 8000000 INFO @ Sun, 21 Jun 2020 17:21:56: 18000000 INFO @ Sun, 21 Jun 2020 17:21:57: 13000000 INFO @ Sun, 21 Jun 2020 17:22:01: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:22:01: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:22:01: #1 total tags in treatment: 18648575 INFO @ Sun, 21 Jun 2020 17:22:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:22:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:22:01: #1 tags after filtering in treatment: 18648562 INFO @ Sun, 21 Jun 2020 17:22:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:22:01: #1 finished! INFO @ Sun, 21 Jun 2020 17:22:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:22:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:22:02: 9000000 INFO @ Sun, 21 Jun 2020 17:22:02: #2 number of paired peaks: 58 WARNING @ Sun, 21 Jun 2020 17:22:02: Too few paired peaks (58) 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 @ Sun, 21 Jun 2020 17:22:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.05_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/dm6/SRX104980/SRX104980.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:22:03: 14000000 INFO @ Sun, 21 Jun 2020 17:22:08: 10000000 INFO @ Sun, 21 Jun 2020 17:22:09: 15000000 INFO @ Sun, 21 Jun 2020 17:22:13: 11000000 INFO @ Sun, 21 Jun 2020 17:22:15: 16000000 INFO @ Sun, 21 Jun 2020 17:22:19: 12000000 INFO @ Sun, 21 Jun 2020 17:22:21: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:22:25: 13000000 INFO @ Sun, 21 Jun 2020 17:22:27: 18000000 INFO @ Sun, 21 Jun 2020 17:22:31: 14000000 INFO @ Sun, 21 Jun 2020 17:22:32: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:22:32: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:22:32: #1 total tags in treatment: 18648575 INFO @ Sun, 21 Jun 2020 17:22:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:22:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:22:32: #1 tags after filtering in treatment: 18648562 INFO @ Sun, 21 Jun 2020 17:22:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:22:32: #1 finished! INFO @ Sun, 21 Jun 2020 17:22:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:22:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:22:33: #2 number of paired peaks: 58 WARNING @ Sun, 21 Jun 2020 17:22:33: Too few paired peaks (58) 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 @ Sun, 21 Jun 2020 17:22:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.10_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/dm6/SRX104980/SRX104980.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:22:37: 15000000 INFO @ Sun, 21 Jun 2020 17:22:42: 16000000 INFO @ Sun, 21 Jun 2020 17:22:47: 17000000 INFO @ Sun, 21 Jun 2020 17:22:53: 18000000 INFO @ Sun, 21 Jun 2020 17:22:56: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:22:56: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:22:56: #1 total tags in treatment: 18648575 INFO @ Sun, 21 Jun 2020 17:22:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:22:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:22:57: #1 tags after filtering in treatment: 18648562 INFO @ Sun, 21 Jun 2020 17:22:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:22:57: #1 finished! INFO @ Sun, 21 Jun 2020 17:22:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:22:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:22:58: #2 number of paired peaks: 58 WARNING @ Sun, 21 Jun 2020 17:22:58: Too few paired peaks (58) 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 @ Sun, 21 Jun 2020 17:22:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.20_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/dm6/SRX104980/SRX104980.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX104980/SRX104980.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。