Job ID = 14521739 SRX = SRX9399169 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7739327 spots for SRR12935450/SRR12935450.sra Written 7739327 spots for SRR12935450/SRR12935450.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: 00:05:38 7739327 reads; of these: 7739327 (100.00%) were paired; of these: 1418100 (18.32%) aligned concordantly 0 times 5391720 (69.67%) aligned concordantly exactly 1 time 929507 (12.01%) aligned concordantly >1 times ---- 1418100 pairs aligned concordantly 0 times; of these: 300508 (21.19%) aligned discordantly 1 time ---- 1117592 pairs aligned 0 times concordantly or discordantly; of these: 2235184 mates make up the pairs; of these: 1861950 (83.30%) aligned 0 times 243212 (10.88%) aligned exactly 1 time 130022 (5.82%) aligned >1 times 87.97% overall alignment rate Time searching: 00:05:38 Overall time: 00:05:38 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] 990606 / 6476380 = 0.1530 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 21:40:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.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 21:40:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:40:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:40:37: 1000000 INFO @ Sat, 15 Jan 2022 21:40:43: 2000000 INFO @ Sat, 15 Jan 2022 21:40:48: 3000000 INFO @ Sat, 15 Jan 2022 21:40:54: 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 21:40:59: 5000000 INFO @ Sat, 15 Jan 2022 21:41:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.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 21:41:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:41:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:41:07: 6000000 INFO @ Sat, 15 Jan 2022 21:41:09: 1000000 INFO @ Sat, 15 Jan 2022 21:41:14: 2000000 INFO @ Sat, 15 Jan 2022 21:41:14: 7000000 INFO @ Sat, 15 Jan 2022 21:41:20: 3000000 INFO @ Sat, 15 Jan 2022 21:41:22: 8000000 INFO @ Sat, 15 Jan 2022 21:41:25: 4000000 BedGraph に変換中... INFO @ Sat, 15 Jan 2022 21:41:29: 9000000 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 21:41:31: 5000000 INFO @ Sat, 15 Jan 2022 21:41:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.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 21:41:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:41:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:41:37: 10000000 INFO @ Sat, 15 Jan 2022 21:41:38: 6000000 INFO @ Sat, 15 Jan 2022 21:41:39: 1000000 INFO @ Sat, 15 Jan 2022 21:41:44: 11000000 INFO @ Sat, 15 Jan 2022 21:41:45: 7000000 INFO @ Sat, 15 Jan 2022 21:41:46: 2000000 INFO @ Sat, 15 Jan 2022 21:41:48: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:41:48: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:41:48: #1 total tags in treatment: 5345519 INFO @ Sat, 15 Jan 2022 21:41:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:41:48: #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 21:41:48: #1 tags after filtering in treatment: 3390682 INFO @ Sat, 15 Jan 2022 21:41:48: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 21:41:48: #1 finished! INFO @ Sat, 15 Jan 2022 21:41:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:41:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:41:48: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:41:48: Too few paired peaks (1) 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 21:41:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.05_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/SRX9399169/SRX9399169.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:41:51: 8000000 INFO @ Sat, 15 Jan 2022 21:41:52: 3000000 INFO @ Sat, 15 Jan 2022 21:41:58: 9000000 INFO @ Sat, 15 Jan 2022 21:41:59: 4000000 INFO @ Sat, 15 Jan 2022 21:42:04: 10000000 INFO @ Sat, 15 Jan 2022 21:42:06: 5000000 INFO @ Sat, 15 Jan 2022 21:42:11: 11000000 INFO @ Sat, 15 Jan 2022 21:42:12: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:42:15: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:42:15: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:42:15: #1 total tags in treatment: 5345519 INFO @ Sat, 15 Jan 2022 21:42:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:15: #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 21:42:15: #1 tags after filtering in treatment: 3390682 INFO @ Sat, 15 Jan 2022 21:42:15: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 21:42:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:15: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:42:15: Too few paired peaks (1) 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 21:42:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.10_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/SRX9399169/SRX9399169.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:42:19: 7000000 INFO @ Sat, 15 Jan 2022 21:42:26: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:42:31: 9000000 INFO @ Sat, 15 Jan 2022 21:42:36: 10000000 INFO @ Sat, 15 Jan 2022 21:42:42: 11000000 INFO @ Sat, 15 Jan 2022 21:42:45: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:42:45: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:42:45: #1 total tags in treatment: 5345519 INFO @ Sat, 15 Jan 2022 21:42:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:45: #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 21:42:45: #1 tags after filtering in treatment: 3390682 INFO @ Sat, 15 Jan 2022 21:42:45: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 21:42:45: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:45: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:42:45: Too few paired peaks (1) 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 21:42:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.20_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/SRX9399169/SRX9399169.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399169/SRX9399169.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling