Job ID = 8184699 SRX = SRX8362530 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-08-10T05:14:02 prefetch.2.10.7: 1) Downloading 'SRR11811257'... 2020-08-10T05:14:02 prefetch.2.10.7: Downloading via HTTPS... 2020-08-10T05:14:31 prefetch.2.10.7: HTTPS download succeed 2020-08-10T05:14:32 prefetch.2.10.7: 'SRR11811257' is valid 2020-08-10T05:14:32 prefetch.2.10.7: 1) 'SRR11811257' was downloaded successfully Read 5634024 spots for SRR11811257/SRR11811257.sra Written 5634024 spots for SRR11811257/SRR11811257.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: 00:00:33 5634024 reads; of these: 5634024 (100.00%) were unpaired; of these: 348752 (6.19%) aligned 0 times 4422742 (78.50%) aligned exactly 1 time 862530 (15.31%) aligned >1 times 93.81% overall alignment rate Time searching: 00:00:33 Overall time: 00:00:33 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] 1166566 / 5285272 = 0.2207 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 14:16:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.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 14:16:46: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:16:46: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:16:51: 1000000 INFO @ Mon, 10 Aug 2020 14:16:56: 2000000 INFO @ Mon, 10 Aug 2020 14:17:01: 3000000 INFO @ Mon, 10 Aug 2020 14:17:06: 4000000 INFO @ Mon, 10 Aug 2020 14:17:07: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:17:07: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:17:07: #1 total tags in treatment: 4118706 INFO @ Mon, 10 Aug 2020 14:17:07: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:17:07: #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 14:17:07: #1 tags after filtering in treatment: 4118706 INFO @ Mon, 10 Aug 2020 14:17:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:17:07: #1 finished! INFO @ Mon, 10 Aug 2020 14:17:07: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:17:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:17:07: #2 number of paired peaks: 35 WARNING @ Mon, 10 Aug 2020 14:17:07: Too few paired peaks (35) 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 14:17:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.05_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/SRX8362530/SRX8362530.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.05_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 14:17:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.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 14:17:16: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:17:16: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:17:22: 1000000 INFO @ Mon, 10 Aug 2020 14:17:26: 2000000 INFO @ Mon, 10 Aug 2020 14:17:31: 3000000 INFO @ Mon, 10 Aug 2020 14:17:36: 4000000 INFO @ Mon, 10 Aug 2020 14:17:37: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:17:37: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:17:37: #1 total tags in treatment: 4118706 INFO @ Mon, 10 Aug 2020 14:17:37: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:17:37: #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 14:17:37: #1 tags after filtering in treatment: 4118706 INFO @ Mon, 10 Aug 2020 14:17:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:17:37: #1 finished! INFO @ Mon, 10 Aug 2020 14:17:37: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:17:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:17:37: #2 number of paired peaks: 35 WARNING @ Mon, 10 Aug 2020 14:17:37: Too few paired peaks (35) 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 14:17:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.10_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/SRX8362530/SRX8362530.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.10_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 14:17:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.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 14:17:46: #1 read tag files... INFO @ Mon, 10 Aug 2020 14:17:46: #1 read treatment tags... INFO @ Mon, 10 Aug 2020 14:17:52: 1000000 INFO @ Mon, 10 Aug 2020 14:17:56: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 10 Aug 2020 14:18:01: 3000000 INFO @ Mon, 10 Aug 2020 14:18:06: 4000000 INFO @ Mon, 10 Aug 2020 14:18:07: #1 tag size is determined as 37 bps INFO @ Mon, 10 Aug 2020 14:18:07: #1 tag size = 37 INFO @ Mon, 10 Aug 2020 14:18:07: #1 total tags in treatment: 4118706 INFO @ Mon, 10 Aug 2020 14:18:07: #1 user defined the maximum tags... INFO @ Mon, 10 Aug 2020 14:18:07: #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 14:18:07: #1 tags after filtering in treatment: 4118706 INFO @ Mon, 10 Aug 2020 14:18:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 10 Aug 2020 14:18:07: #1 finished! INFO @ Mon, 10 Aug 2020 14:18:07: #2 Build Peak Model... INFO @ Mon, 10 Aug 2020 14:18:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 10 Aug 2020 14:18:07: #2 number of paired peaks: 35 WARNING @ Mon, 10 Aug 2020 14:18:07: Too few paired peaks (35) 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 14:18:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.20_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/SRX8362530/SRX8362530.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8362530/SRX8362530.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。