Job ID = 10223968 SRX = SRX7496415 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10717439 spots for SRR10823026/SRR10823026.sra Written 10717439 spots for SRR10823026/SRR10823026.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: 00:04:04 10717439 reads; of these: 10717439 (100.00%) were paired; of these: 5271620 (49.19%) aligned concordantly 0 times 5004994 (46.70%) aligned concordantly exactly 1 time 440825 (4.11%) aligned concordantly >1 times ---- 5271620 pairs aligned concordantly 0 times; of these: 24396 (0.46%) aligned discordantly 1 time ---- 5247224 pairs aligned 0 times concordantly or discordantly; of these: 10494448 mates make up the pairs; of these: 5896526 (56.19%) aligned 0 times 4180194 (39.83%) aligned exactly 1 time 417728 (3.98%) aligned >1 times 72.49% overall alignment rate Time searching: 00:04:04 Overall time: 00:04:04 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_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 226660 / 5462169 = 0.0415 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 @ Fri, 16 Oct 2020 09:07:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.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 @ Fri, 16 Oct 2020 09:07:40: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:07:40: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:07:45: 1000000 INFO @ Fri, 16 Oct 2020 09:07:49: 2000000 INFO @ Fri, 16 Oct 2020 09:07:53: 3000000 INFO @ Fri, 16 Oct 2020 09:07:58: 4000000 INFO @ Fri, 16 Oct 2020 09:08:02: 5000000 INFO @ Fri, 16 Oct 2020 09:08:06: 6000000 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 @ Fri, 16 Oct 2020 09:08:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.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 @ Fri, 16 Oct 2020 09:08:10: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:08:10: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:08:11: 7000000 INFO @ Fri, 16 Oct 2020 09:08:15: 1000000 INFO @ Fri, 16 Oct 2020 09:08:16: 8000000 INFO @ Fri, 16 Oct 2020 09:08:20: 2000000 INFO @ Fri, 16 Oct 2020 09:08:21: 9000000 INFO @ Fri, 16 Oct 2020 09:08:25: 3000000 INFO @ Fri, 16 Oct 2020 09:08:26: 10000000 INFO @ Fri, 16 Oct 2020 09:08:30: 4000000 INFO @ Fri, 16 Oct 2020 09:08:31: 11000000 INFO @ Fri, 16 Oct 2020 09:08:35: 5000000 INFO @ Fri, 16 Oct 2020 09:08:36: 12000000 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 @ Fri, 16 Oct 2020 09:08:40: 6000000 INFO @ Fri, 16 Oct 2020 09:08:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.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 @ Fri, 16 Oct 2020 09:08:40: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:08:40: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:08:41: 13000000 INFO @ Fri, 16 Oct 2020 09:08:45: 7000000 INFO @ Fri, 16 Oct 2020 09:08:46: 1000000 INFO @ Fri, 16 Oct 2020 09:08:47: 14000000 INFO @ Fri, 16 Oct 2020 09:08:51: 8000000 INFO @ Fri, 16 Oct 2020 09:08:51: 2000000 INFO @ Fri, 16 Oct 2020 09:08:52: 15000000 INFO @ Fri, 16 Oct 2020 09:08:52: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:08:52: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:08:52: #1 total tags in treatment: 5219296 INFO @ Fri, 16 Oct 2020 09:08:52: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:08:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:08:53: #1 tags after filtering in treatment: 3240746 INFO @ Fri, 16 Oct 2020 09:08:53: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 16 Oct 2020 09:08:53: #1 finished! INFO @ Fri, 16 Oct 2020 09:08:53: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:08:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:08:53: #2 number of paired peaks: 10 WARNING @ Fri, 16 Oct 2020 09:08:53: Too few paired peaks (10) 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 @ Fri, 16 Oct 2020 09:08:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.05_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/SRX7496415/SRX7496415.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:08:56: 9000000 INFO @ Fri, 16 Oct 2020 09:08:57: 3000000 INFO @ Fri, 16 Oct 2020 09:09:01: 10000000 INFO @ Fri, 16 Oct 2020 09:09:03: 4000000 INFO @ Fri, 16 Oct 2020 09:09:07: 11000000 INFO @ Fri, 16 Oct 2020 09:09:09: 5000000 INFO @ Fri, 16 Oct 2020 09:09:12: 12000000 INFO @ Fri, 16 Oct 2020 09:09:14: 6000000 INFO @ Fri, 16 Oct 2020 09:09:17: 13000000 INFO @ Fri, 16 Oct 2020 09:09:20: 7000000 INFO @ Fri, 16 Oct 2020 09:09:23: 14000000 INFO @ Fri, 16 Oct 2020 09:09:26: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:09:28: 15000000 INFO @ Fri, 16 Oct 2020 09:09:29: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:09:29: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:09:29: #1 total tags in treatment: 5219296 INFO @ Fri, 16 Oct 2020 09:09:29: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:09:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:09:29: #1 tags after filtering in treatment: 3240746 INFO @ Fri, 16 Oct 2020 09:09:29: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 16 Oct 2020 09:09:29: #1 finished! INFO @ Fri, 16 Oct 2020 09:09:29: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:09:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:09:29: #2 number of paired peaks: 10 WARNING @ Fri, 16 Oct 2020 09:09:29: Too few paired peaks (10) 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 @ Fri, 16 Oct 2020 09:09:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.10_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/SRX7496415/SRX7496415.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:09:32: 9000000 INFO @ Fri, 16 Oct 2020 09:09:37: 10000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:09:42: 11000000 INFO @ Fri, 16 Oct 2020 09:09:48: 12000000 INFO @ Fri, 16 Oct 2020 09:09:53: 13000000 INFO @ Fri, 16 Oct 2020 09:09:58: 14000000 INFO @ Fri, 16 Oct 2020 09:10:04: 15000000 INFO @ Fri, 16 Oct 2020 09:10:04: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:10:04: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:10:04: #1 total tags in treatment: 5219296 INFO @ Fri, 16 Oct 2020 09:10:04: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:10:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:10:04: #1 tags after filtering in treatment: 3240746 INFO @ Fri, 16 Oct 2020 09:10:04: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 16 Oct 2020 09:10:04: #1 finished! INFO @ Fri, 16 Oct 2020 09:10:04: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:10:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:10:05: #2 number of paired peaks: 10 WARNING @ Fri, 16 Oct 2020 09:10:05: Too few paired peaks (10) 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 @ Fri, 16 Oct 2020 09:10:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.20_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/SRX7496415/SRX7496415.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496415/SRX7496415.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling