Job ID = 7118316 SRX = SRX8641839 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T07:14:53 prefetch.2.10.7: 1) Downloading 'SRR12120447'... 2020-07-22T07:14:53 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:16:27 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:16:27 prefetch.2.10.7: 1) 'SRR12120447' was downloaded successfully 2020-07-22T07:16:27 prefetch.2.10.7: 'SRR12120447' has 0 unresolved dependencies Read 15772294 spots for SRR12120447/SRR12120447.sra Written 15772294 spots for SRR12120447/SRR12120447.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: 00:04:13 15772294 reads; of these: 15772294 (100.00%) were unpaired; of these: 7665471 (48.60%) aligned 0 times 6555365 (41.56%) aligned exactly 1 time 1551458 (9.84%) aligned >1 times 51.40% overall alignment rate Time searching: 00:04:13 Overall time: 00:04:13 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdupse_core] 4152855 / 8106823 = 0.5123 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 @ Wed, 22 Jul 2020 16:24:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:24:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:24:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:24:58: 1000000 INFO @ Wed, 22 Jul 2020 16:25:05: 2000000 INFO @ Wed, 22 Jul 2020 16:25:12: 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 @ Wed, 22 Jul 2020 16:25:19: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:25:19: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:25:19: #1 total tags in treatment: 3953968 INFO @ Wed, 22 Jul 2020 16:25:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:25:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:25:19: #1 tags after filtering in treatment: 3953968 INFO @ Wed, 22 Jul 2020 16:25:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:25:19: #1 finished! INFO @ Wed, 22 Jul 2020 16:25:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:25:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:25:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:25:19: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:25:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:25:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:25:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:28: 1000000 INFO @ Wed, 22 Jul 2020 16:25:35: 2000000 INFO @ Wed, 22 Jul 2020 16:25:42: 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 @ Wed, 22 Jul 2020 16:25:49: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:25:49: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:25:49: #1 total tags in treatment: 3953968 INFO @ Wed, 22 Jul 2020 16:25:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:25:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:25:49: #1 tags after filtering in treatment: 3953968 INFO @ Wed, 22 Jul 2020 16:25:49: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:25:49: #1 finished! INFO @ Wed, 22 Jul 2020 16:25:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:25:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:25:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:25:49: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:25:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.10_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/sacCer3/SRX8641839/SRX8641839.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:25:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:25:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:58: 1000000 INFO @ Wed, 22 Jul 2020 16:26:05: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:26:13: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:26:20: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:26:20: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:26:20: #1 total tags in treatment: 3953968 INFO @ Wed, 22 Jul 2020 16:26:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:26:20: #1 tags after filtering in treatment: 3953968 INFO @ Wed, 22 Jul 2020 16:26:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:26:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:20: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:26:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.20_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/sacCer3/SRX8641839/SRX8641839.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641839/SRX8641839.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling