Job ID = 14521521 SRX = SRX10468498 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3921348 spots for SRR14094809/SRR14094809.sra Written 3921348 spots for SRR14094809/SRR14094809.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: 00:02:03 3921348 reads; of these: 3921348 (100.00%) were paired; of these: 367217 (9.36%) aligned concordantly 0 times 2940086 (74.98%) aligned concordantly exactly 1 time 614045 (15.66%) aligned concordantly >1 times ---- 367217 pairs aligned concordantly 0 times; of these: 25348 (6.90%) aligned discordantly 1 time ---- 341869 pairs aligned 0 times concordantly or discordantly; of these: 683738 mates make up the pairs; of these: 599342 (87.66%) aligned 0 times 56383 (8.25%) aligned exactly 1 time 28013 (4.10%) aligned >1 times 92.36% overall alignment rate Time searching: 00:02:03 Overall time: 00:02:03 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] 98722 / 3556374 = 0.0278 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 21:10:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.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 21:10:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:10:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:38: 1000000 INFO @ Sat, 15 Jan 2022 21:10:44: 2000000 INFO @ Sat, 15 Jan 2022 21:10:49: 3000000 INFO @ Sat, 15 Jan 2022 21:10:55: 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 21:11:01: 5000000 INFO @ Sat, 15 Jan 2022 21:11:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.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 21:11:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:11:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:11:07: 6000000 INFO @ Sat, 15 Jan 2022 21:11:08: 1000000 INFO @ Sat, 15 Jan 2022 21:11:12: 7000000 INFO @ Sat, 15 Jan 2022 21:11:13: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:11:13: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:11:13: #1 total tags in treatment: 3455441 INFO @ Sat, 15 Jan 2022 21:11:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:13: #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 21:11:13: #1 tags after filtering in treatment: 2879757 INFO @ Sat, 15 Jan 2022 21:11:13: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 21:11:13: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:13: #2 number of paired peaks: 50 WARNING @ Sat, 15 Jan 2022 21:11:13: Too few paired peaks (50) 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 21:11:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.05_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/SRX10468498/SRX10468498.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:11:13: 2000000 INFO @ Sat, 15 Jan 2022 21:11:18: 3000000 INFO @ Sat, 15 Jan 2022 21:11:23: 4000000 INFO @ Sat, 15 Jan 2022 21:11:28: 5000000 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 21:11:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.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 21:11:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:11:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:11:33: 6000000 INFO @ Sat, 15 Jan 2022 21:11:38: 7000000 INFO @ Sat, 15 Jan 2022 21:11:38: 1000000 INFO @ Sat, 15 Jan 2022 21:11:38: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:11:38: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:11:38: #1 total tags in treatment: 3455441 INFO @ Sat, 15 Jan 2022 21:11:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:38: #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 21:11:39: #1 tags after filtering in treatment: 2879757 INFO @ Sat, 15 Jan 2022 21:11:39: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 21:11:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:39: #2 number of paired peaks: 50 WARNING @ Sat, 15 Jan 2022 21:11:39: Too few paired peaks (50) 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 21:11:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.10_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/SRX10468498/SRX10468498.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:11:43: 2000000 INFO @ Sat, 15 Jan 2022 21:11:48: 3000000 INFO @ Sat, 15 Jan 2022 21:11:53: 4000000 INFO @ Sat, 15 Jan 2022 21:11:58: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:12:02: 6000000 INFO @ Sat, 15 Jan 2022 21:12:07: 7000000 INFO @ Sat, 15 Jan 2022 21:12:08: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:12:08: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:12:08: #1 total tags in treatment: 3455441 INFO @ Sat, 15 Jan 2022 21:12:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:12:08: #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 21:12:08: #1 tags after filtering in treatment: 2879757 INFO @ Sat, 15 Jan 2022 21:12:08: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 21:12:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:12:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:12:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:12:08: #2 number of paired peaks: 50 WARNING @ Sat, 15 Jan 2022 21:12:08: Too few paired peaks (50) 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 21:12:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.20_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/SRX10468498/SRX10468498.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468498/SRX10468498.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。