Job ID = 8184695 SRX = SRX8362527 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-08-10T05:12:32 prefetch.2.10.7: 1) Downloading 'SRR11811254'... 2020-08-10T05:12:32 prefetch.2.10.7: Downloading via HTTPS... 2020-08-10T05:13:13 prefetch.2.10.7: HTTPS download succeed 2020-08-10T05:13:14 prefetch.2.10.7: 'SRR11811254' is valid 2020-08-10T05:13:14 prefetch.2.10.7: 1) 'SRR11811254' was downloaded successfully Read 10110555 spots for SRR11811254/SRR11811254.sra Written 10110555 spots for SRR11811254/SRR11811254.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: 00:01:10 10110555 reads; of these: 10110555 (100.00%) were unpaired; of these: 1535724 (15.19%) aligned 0 times 6506775 (64.36%) aligned exactly 1 time 2068056 (20.45%) aligned >1 times 84.81% overall alignment rate Time searching: 00:01:10 Overall time: 00:01:10 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] 2985462 / 8574831 = 0.3482 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, 10 Aug 2020 14:16:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.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 @ Mon, 10 Aug 2020 14:16:58: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:16:58: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:17:06: 1000000 INFO @ Mon, 10 Aug 2020 14:17:13: 2000000 INFO @ Mon, 10 Aug 2020 14:17:20: 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, 10 Aug 2020 14:17:27: 4000000 INFO @ Mon, 10 Aug 2020 14:17:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.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 @ Mon, 10 Aug 2020 14:17:28: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:17:28: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:17:35: 5000000 INFO @ Mon, 10 Aug 2020 14:17:36: 1000000 INFO @ Mon, 10 Aug 2020 14:17:40: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:17:40: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:17:40: #1 total tags in treatment: 5589369 INFO @ Mon, 10 Aug 2020 14:17:40: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:17:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 10 Aug 2020 14:17:40: #1 tags after filtering in treatment: 5589369 INFO @ Mon, 10 Aug 2020 14:17:40: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:17:40: #1 finished! INFO @ Mon, 10 Aug 2020 14:17:40: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:17:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:17:40: #2 number of paired peaks: 0 WARNING @ Mon, 10 Aug 2020 14:17:40: 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 @ Mon, 10 Aug 2020 14:17:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.05_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/sacCer3/SRX8362527/SRX8362527.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 10 Aug 2020 14:17:42: 2000000 INFO @ Mon, 10 Aug 2020 14:17:49: 3000000 INFO @ Mon, 10 Aug 2020 14:17:55: 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, 10 Aug 2020 14:17:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.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 @ Mon, 10 Aug 2020 14:17:58: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:17:58: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:18:01: 5000000 INFO @ Mon, 10 Aug 2020 14:18:06: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:18:06: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:18:06: #1 total tags in treatment: 5589369 INFO @ Mon, 10 Aug 2020 14:18:06: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:18:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 10 Aug 2020 14:18:06: 1000000 INFO @ Mon, 10 Aug 2020 14:18:06: #1 tags after filtering in treatment: 5589369 INFO @ Mon, 10 Aug 2020 14:18:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:18:06: #1 finished! INFO @ Mon, 10 Aug 2020 14:18:06: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:18:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:18:06: #2 number of paired peaks: 0 WARNING @ Mon, 10 Aug 2020 14:18:06: 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 @ Mon, 10 Aug 2020 14:18:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.10_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/SRX8362527/SRX8362527.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 10 Aug 2020 14:18:13: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 10 Aug 2020 14:18:20: 3000000 INFO @ Mon, 10 Aug 2020 14:18:26: 4000000 BigWig に変換しました。 INFO @ Mon, 10 Aug 2020 14:18:33: 5000000 INFO @ Mon, 10 Aug 2020 14:18:37: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:18:37: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:18:37: #1 total tags in treatment: 5589369 INFO @ Mon, 10 Aug 2020 14:18:37: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:18:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 10 Aug 2020 14:18:37: #1 tags after filtering in treatment: 5589369 INFO @ Mon, 10 Aug 2020 14:18:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:18:37: #1 finished! INFO @ Mon, 10 Aug 2020 14:18:37: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:18:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:18:38: #2 number of paired peaks: 0 WARNING @ Mon, 10 Aug 2020 14:18:38: 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 @ Mon, 10 Aug 2020 14:18:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.20_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/SRX8362527/SRX8362527.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362527/SRX8362527.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling