Job ID = 8184701 SRX = SRX8362532 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-08-10T05:14:46 prefetch.2.10.7: 1) Downloading 'SRR11811259'... 2020-08-10T05:14:46 prefetch.2.10.7: Downloading via HTTPS... 2020-08-10T05:15:12 prefetch.2.10.7: HTTPS download succeed 2020-08-10T05:15:12 prefetch.2.10.7: 'SRR11811259' is valid 2020-08-10T05:15:12 prefetch.2.10.7: 1) 'SRR11811259' was downloaded successfully Read 4979910 spots for SRR11811259/SRR11811259.sra Written 4979910 spots for SRR11811259/SRR11811259.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: 00:00:29 4979910 reads; of these: 4979910 (100.00%) were unpaired; of these: 540392 (10.85%) aligned 0 times 3654062 (73.38%) aligned exactly 1 time 785456 (15.77%) aligned >1 times 89.15% overall alignment rate Time searching: 00:00:29 Overall time: 00:00:29 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] 976034 / 4439518 = 0.2199 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 14:17:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.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 14:17:13: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:17:13: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:17:18: 1000000 INFO @ Mon, 10 Aug 2020 14:17:23: 2000000 INFO @ Mon, 10 Aug 2020 14:17:28: 3000000 INFO @ Mon, 10 Aug 2020 14:17:30: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:17:30: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:17:30: #1 total tags in treatment: 3463484 INFO @ Mon, 10 Aug 2020 14:17:30: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:17:30: #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 14:17:30: #1 tags after filtering in treatment: 3463484 INFO @ Mon, 10 Aug 2020 14:17:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:17:30: #1 finished! INFO @ Mon, 10 Aug 2020 14:17:30: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:17:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:17:30: #2 number of paired peaks: 29 WARNING @ Mon, 10 Aug 2020 14:17:30: Too few paired peaks (29) 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 14:17:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.05_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/SRX8362532/SRX8362532.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 14:17:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.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 14:17:43: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:17:43: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:17:48: 1000000 INFO @ Mon, 10 Aug 2020 14:17:53: 2000000 INFO @ Mon, 10 Aug 2020 14:17:58: 3000000 INFO @ Mon, 10 Aug 2020 14:18:00: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:18:00: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:18:00: #1 total tags in treatment: 3463484 INFO @ Mon, 10 Aug 2020 14:18:00: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:18:00: #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 14:18:00: #1 tags after filtering in treatment: 3463484 INFO @ Mon, 10 Aug 2020 14:18:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:18:00: #1 finished! INFO @ Mon, 10 Aug 2020 14:18:00: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:18:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:18:01: #2 number of paired peaks: 29 WARNING @ Mon, 10 Aug 2020 14:18:01: Too few paired peaks (29) 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 14:18:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.10_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/SRX8362532/SRX8362532.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 14:18:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.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 14:18:13: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:18:13: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:18:18: 1000000 INFO @ Mon, 10 Aug 2020 14:18:24: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 10 Aug 2020 14:18:29: 3000000 INFO @ Mon, 10 Aug 2020 14:18:31: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:18:31: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:18:31: #1 total tags in treatment: 3463484 INFO @ Mon, 10 Aug 2020 14:18:31: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:18:31: #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 14:18:31: #1 tags after filtering in treatment: 3463484 INFO @ Mon, 10 Aug 2020 14:18:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:18:31: #1 finished! INFO @ Mon, 10 Aug 2020 14:18:31: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:18:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:18:31: #2 number of paired peaks: 29 WARNING @ Mon, 10 Aug 2020 14:18:31: Too few paired peaks (29) 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 14:18:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.20_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/sacCer3/SRX8362532/SRX8362532.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362532/SRX8362532.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。