Job ID = 14522138 SRX = SRX9067153 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3611697 spots for SRR12580306/SRR12580306.sra Written 3611697 spots for SRR12580306/SRR12580306.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: 00:02:43 3611697 reads; of these: 3611697 (100.00%) were paired; of these: 755908 (20.93%) aligned concordantly 0 times 2493462 (69.04%) aligned concordantly exactly 1 time 362327 (10.03%) aligned concordantly >1 times ---- 755908 pairs aligned concordantly 0 times; of these: 171215 (22.65%) aligned discordantly 1 time ---- 584693 pairs aligned 0 times concordantly or discordantly; of these: 1169386 mates make up the pairs; of these: 920176 (78.69%) aligned 0 times 177119 (15.15%) aligned exactly 1 time 72091 (6.16%) aligned >1 times 87.26% overall alignment rate Time searching: 00:02:43 Overall time: 00:02:43 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] 228345 / 2902191 = 0.0787 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 22:19:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.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 22:19:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:19:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:19:34: 1000000 INFO @ Sat, 15 Jan 2022 22:19:43: 2000000 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 22:19:52: 3000000 INFO @ Sat, 15 Jan 2022 22:19:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.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 22:19:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:19:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:20:02: 4000000 INFO @ Sat, 15 Jan 2022 22:20:05: 1000000 INFO @ Sat, 15 Jan 2022 22:20:12: 5000000 INFO @ Sat, 15 Jan 2022 22:20:15: 2000000 INFO @ Sat, 15 Jan 2022 22:20:20: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 22:20:20: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 22:20:20: #1 total tags in treatment: 2628659 INFO @ Sat, 15 Jan 2022 22:20:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:20:20: #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 22:20:20: #1 tags after filtering in treatment: 2031754 INFO @ Sat, 15 Jan 2022 22:20:20: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 22:20:20: #1 finished! INFO @ Sat, 15 Jan 2022 22:20:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:20:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:20:20: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:20:20: Too few paired peaks (27) 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 22:20:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.05_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 22:20:24: 3000000 INFO @ Sat, 15 Jan 2022 22:20:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.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 22:20:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:20:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:20:32: 1000000 INFO @ Sat, 15 Jan 2022 22:20:33: 4000000 INFO @ Sat, 15 Jan 2022 22:20:38: 2000000 INFO @ Sat, 15 Jan 2022 22:20:43: 5000000 INFO @ Sat, 15 Jan 2022 22:20:45: 3000000 INFO @ Sat, 15 Jan 2022 22:20:51: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 22:20:51: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 22:20:51: #1 total tags in treatment: 2628659 INFO @ Sat, 15 Jan 2022 22:20:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:20:51: #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 22:20:51: #1 tags after filtering in treatment: 2031754 INFO @ Sat, 15 Jan 2022 22:20:51: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 22:20:51: #1 finished! INFO @ Sat, 15 Jan 2022 22:20:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:20:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:20:51: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:20:51: Too few paired peaks (27) 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 22:20:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 22:20:51: 4000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:20:57: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:21:03: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 22:21:03: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 22:21:03: #1 total tags in treatment: 2628659 INFO @ Sat, 15 Jan 2022 22:21:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:21:03: #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 22:21:03: #1 tags after filtering in treatment: 2031754 INFO @ Sat, 15 Jan 2022 22:21:03: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 22:21:03: #1 finished! INFO @ Sat, 15 Jan 2022 22:21:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:21:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:21:03: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:21:03: Too few paired peaks (27) 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 22:21:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.20_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/SRX9067153/SRX9067153.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067153/SRX9067153.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。