Job ID = 14520338 SRX = SRX8398390 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 2421132 spots for SRR11848074/SRR11848074.sra Written 2421132 spots for SRR11848074/SRR11848074.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: 00:01:34 2421132 reads; of these: 2421132 (100.00%) were paired; of these: 156318 (6.46%) aligned concordantly 0 times 2049925 (84.67%) aligned concordantly exactly 1 time 214889 (8.88%) aligned concordantly >1 times ---- 156318 pairs aligned concordantly 0 times; of these: 57449 (36.75%) aligned discordantly 1 time ---- 98869 pairs aligned 0 times concordantly or discordantly; of these: 197738 mates make up the pairs; of these: 168124 (85.02%) aligned 0 times 16100 (8.14%) aligned exactly 1 time 13514 (6.83%) aligned >1 times 96.53% overall alignment rate Time searching: 00:01:34 Overall time: 00:01:34 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_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] 129744 / 2322071 = 0.0559 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:01:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.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 @ Sat, 15 Jan 2022 19:01:27: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:01:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:01:33: 1000000 INFO @ Sat, 15 Jan 2022 19:01:39: 2000000 INFO @ Sat, 15 Jan 2022 19:01:44: 3000000 INFO @ Sat, 15 Jan 2022 19:01:50: 4000000 INFO @ Sat, 15 Jan 2022 19:01:52: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 19:01:52: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 19:01:52: #1 total tags in treatment: 2136367 INFO @ Sat, 15 Jan 2022 19:01:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:01:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:01:52: #1 tags after filtering in treatment: 1729535 INFO @ Sat, 15 Jan 2022 19:01:52: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 19:01:52: #1 finished! INFO @ Sat, 15 Jan 2022 19:01:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:01:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:01:52: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 19:01:52: 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 @ Sat, 15 Jan 2022 19:01:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.05_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/SRX8398390/SRX8398390.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:01:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.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 @ Sat, 15 Jan 2022 19:01:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:01:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:02:03: 1000000 INFO @ Sat, 15 Jan 2022 19:02:09: 2000000 INFO @ Sat, 15 Jan 2022 19:02:15: 3000000 INFO @ Sat, 15 Jan 2022 19:02:21: 4000000 INFO @ Sat, 15 Jan 2022 19:02:24: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 19:02:24: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 19:02:24: #1 total tags in treatment: 2136367 INFO @ Sat, 15 Jan 2022 19:02:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:02:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:02:24: #1 tags after filtering in treatment: 1729535 INFO @ Sat, 15 Jan 2022 19:02:24: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 19:02:24: #1 finished! INFO @ Sat, 15 Jan 2022 19:02:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:02:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:02:24: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 19:02:24: 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 @ Sat, 15 Jan 2022 19:02:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.10_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/SRX8398390/SRX8398390.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:02:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.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 @ Sat, 15 Jan 2022 19:02:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:02:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:02:32: 1000000 INFO @ Sat, 15 Jan 2022 19:02:37: 2000000 INFO @ Sat, 15 Jan 2022 19:02:42: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:02:46: 4000000 INFO @ Sat, 15 Jan 2022 19:02:48: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 19:02:48: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 19:02:48: #1 total tags in treatment: 2136367 INFO @ Sat, 15 Jan 2022 19:02:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:02:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:02:48: #1 tags after filtering in treatment: 1729535 INFO @ Sat, 15 Jan 2022 19:02:48: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 19:02:48: #1 finished! INFO @ Sat, 15 Jan 2022 19:02:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:02:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:02:48: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 19:02:48: 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 @ Sat, 15 Jan 2022 19:02:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.20_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/SRX8398390/SRX8398390.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398390/SRX8398390.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。