Job ID = 14519683 SRX = SRX9067173 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3488645 spots for SRR12580326/SRR12580326.sra Written 3488645 spots for SRR12580326/SRR12580326.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: 00:01:49 3488645 reads; of these: 3488645 (100.00%) were paired; of these: 387058 (11.09%) aligned concordantly 0 times 2919762 (83.69%) aligned concordantly exactly 1 time 181825 (5.21%) aligned concordantly >1 times ---- 387058 pairs aligned concordantly 0 times; of these: 154329 (39.87%) aligned discordantly 1 time ---- 232729 pairs aligned 0 times concordantly or discordantly; of these: 465458 mates make up the pairs; of these: 309331 (66.46%) aligned 0 times 129480 (27.82%) aligned exactly 1 time 26647 (5.72%) aligned >1 times 95.57% overall alignment rate Time searching: 00:01:49 Overall time: 00:01:49 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] 559758 / 3169805 = 0.1766 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 17:26:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.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 17:26:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:26:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:26:24: 1000000 INFO @ Sat, 15 Jan 2022 17:26:30: 2000000 INFO @ Sat, 15 Jan 2022 17:26:37: 3000000 INFO @ Sat, 15 Jan 2022 17:26:43: 4000000 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 17:26:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.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 17:26:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:26:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:26:50: 5000000 INFO @ Sat, 15 Jan 2022 17:26:53: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:26:53: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:26:53: #1 total tags in treatment: 2549290 INFO @ Sat, 15 Jan 2022 17:26:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:26:53: #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 17:26:53: #1 tags after filtering in treatment: 1861590 INFO @ Sat, 15 Jan 2022 17:26:53: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 17:26:53: #1 finished! INFO @ Sat, 15 Jan 2022 17:26:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:26:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:26:53: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:26:53: Too few paired peaks (0) 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 17:26:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.05_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/SRX9067173/SRX9067173.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:26:54: 1000000 INFO @ Sat, 15 Jan 2022 17:27:00: 2000000 INFO @ Sat, 15 Jan 2022 17:27:07: 3000000 INFO @ Sat, 15 Jan 2022 17:27:13: 4000000 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 17:27:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.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 17:27:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:27:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:27:19: 5000000 INFO @ Sat, 15 Jan 2022 17:27:22: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:27:22: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:27:22: #1 total tags in treatment: 2549290 INFO @ Sat, 15 Jan 2022 17:27:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:27:22: #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 17:27:23: #1 tags after filtering in treatment: 1861590 INFO @ Sat, 15 Jan 2022 17:27:23: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 17:27:23: #1 finished! INFO @ Sat, 15 Jan 2022 17:27:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:27:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:27:23: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:27:23: Too few paired peaks (0) 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 17:27:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.10_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/SRX9067173/SRX9067173.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:27:24: 1000000 INFO @ Sat, 15 Jan 2022 17:27:30: 2000000 INFO @ Sat, 15 Jan 2022 17:27:37: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:27:43: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:27:49: 5000000 INFO @ Sat, 15 Jan 2022 17:27:53: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:27:53: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:27:53: #1 total tags in treatment: 2549290 INFO @ Sat, 15 Jan 2022 17:27:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:27:53: #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 17:27:53: #1 tags after filtering in treatment: 1861590 INFO @ Sat, 15 Jan 2022 17:27:53: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 17:27:53: #1 finished! INFO @ Sat, 15 Jan 2022 17:27:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:27:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:27:53: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:27:53: Too few paired peaks (0) 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 17:27:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.20_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/SRX9067173/SRX9067173.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067173/SRX9067173.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling