Job ID = 6528124 SRX = SRX467105 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:28:51 prefetch.2.10.7: 1) Downloading 'SRR1164529'... 2020-06-29T14:28:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:30:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:30:46 prefetch.2.10.7: 'SRR1164529' is valid 2020-06-29T14:30:46 prefetch.2.10.7: 1) 'SRR1164529' was downloaded successfully Read 11329840 spots for SRR1164529/SRR1164529.sra Written 11329840 spots for SRR1164529/SRR1164529.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:01 11329840 reads; of these: 11329840 (100.00%) were unpaired; of these: 1939410 (17.12%) aligned 0 times 7497980 (66.18%) aligned exactly 1 time 1892450 (16.70%) aligned >1 times 82.88% overall alignment rate Time searching: 00:03:02 Overall time: 00:03:02 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_rmdupse_core] 599128 / 9390430 = 0.0638 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 23:39:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.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 23:39:51: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:39:51: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:39:57: 1000000 INFO @ Mon, 29 Jun 2020 23:40:02: 2000000 INFO @ Mon, 29 Jun 2020 23:40:08: 3000000 INFO @ Mon, 29 Jun 2020 23:40:13: 4000000 INFO @ Mon, 29 Jun 2020 23:40:19: 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 23:40:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.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 23:40:21: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:40:21: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:40:25: 6000000 INFO @ Mon, 29 Jun 2020 23:40:27: 1000000 INFO @ Mon, 29 Jun 2020 23:40:31: 7000000 INFO @ Mon, 29 Jun 2020 23:40:34: 2000000 INFO @ Mon, 29 Jun 2020 23:40:37: 8000000 INFO @ Mon, 29 Jun 2020 23:40:40: 3000000 INFO @ Mon, 29 Jun 2020 23:40:42: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:40:42: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:40:42: #1 total tags in treatment: 8791302 INFO @ Mon, 29 Jun 2020 23:40:42: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:40:42: #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 23:40:42: #1 tags after filtering in treatment: 8791302 INFO @ Mon, 29 Jun 2020 23:40:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:40:42: #1 finished! INFO @ Mon, 29 Jun 2020 23:40:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:40:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:40:43: #2 number of paired peaks: 32 WARNING @ Mon, 29 Jun 2020 23:40:43: Too few paired peaks (32) 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 23:40:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.05_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/SRX467105/SRX467105.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:40:46: 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 @ Mon, 29 Jun 2020 23:40:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.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 23:40:51: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:40:51: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:40:52: 5000000 INFO @ Mon, 29 Jun 2020 23:40:57: 1000000 INFO @ Mon, 29 Jun 2020 23:40:58: 6000000 INFO @ Mon, 29 Jun 2020 23:41:03: 2000000 INFO @ Mon, 29 Jun 2020 23:41:04: 7000000 INFO @ Mon, 29 Jun 2020 23:41:10: 3000000 INFO @ Mon, 29 Jun 2020 23:41:11: 8000000 INFO @ Mon, 29 Jun 2020 23:41:16: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:41:16: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:41:16: #1 total tags in treatment: 8791302 INFO @ Mon, 29 Jun 2020 23:41:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:41:16: #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 23:41:16: #1 tags after filtering in treatment: 8791302 INFO @ Mon, 29 Jun 2020 23:41:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:41:16: #1 finished! INFO @ Mon, 29 Jun 2020 23:41:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:41:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:41:16: 4000000 INFO @ Mon, 29 Jun 2020 23:41:16: #2 number of paired peaks: 32 WARNING @ Mon, 29 Jun 2020 23:41:16: Too few paired peaks (32) 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 23:41:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.10_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/SRX467105/SRX467105.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:41:22: 5000000 INFO @ Mon, 29 Jun 2020 23:41:28: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:41:33: 7000000 INFO @ Mon, 29 Jun 2020 23:41:39: 8000000 INFO @ Mon, 29 Jun 2020 23:41:44: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:41:44: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:41:44: #1 total tags in treatment: 8791302 INFO @ Mon, 29 Jun 2020 23:41:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:41:44: #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 23:41:44: #1 tags after filtering in treatment: 8791302 INFO @ Mon, 29 Jun 2020 23:41:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:41:44: #1 finished! INFO @ Mon, 29 Jun 2020 23:41:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:41:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:41:45: #2 number of paired peaks: 32 WARNING @ Mon, 29 Jun 2020 23:41:45: Too few paired peaks (32) 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 23:41:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.20_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/SRX467105/SRX467105.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467105/SRX467105.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。