Job ID = 14521732 SRX = SRX9399162 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15509588 spots for SRR12935443/SRR12935443.sra Written 15509588 spots for SRR12935443/SRR12935443.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: 00:07:07 15509588 reads; of these: 15509588 (100.00%) were paired; of these: 1956657 (12.62%) aligned concordantly 0 times 12413180 (80.04%) aligned concordantly exactly 1 time 1139751 (7.35%) aligned concordantly >1 times ---- 1956657 pairs aligned concordantly 0 times; of these: 255214 (13.04%) aligned discordantly 1 time ---- 1701443 pairs aligned 0 times concordantly or discordantly; of these: 3402886 mates make up the pairs; of these: 2806703 (82.48%) aligned 0 times 484176 (14.23%) aligned exactly 1 time 112007 (3.29%) aligned >1 times 90.95% overall alignment rate Time searching: 00:07:07 Overall time: 00:07:07 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 12 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] 2701205 / 13782646 = 0.1960 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 21:44:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.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 21:44:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:13: 1000000 INFO @ Sat, 15 Jan 2022 21:44:18: 2000000 INFO @ Sat, 15 Jan 2022 21:44:23: 3000000 INFO @ Sat, 15 Jan 2022 21:44:27: 4000000 INFO @ Sat, 15 Jan 2022 21:44:32: 5000000 INFO @ Sat, 15 Jan 2022 21:44:36: 6000000 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 21:44:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.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 21:44:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:41: 7000000 INFO @ Sat, 15 Jan 2022 21:44:43: 1000000 INFO @ Sat, 15 Jan 2022 21:44:46: 8000000 INFO @ Sat, 15 Jan 2022 21:44:48: 2000000 INFO @ Sat, 15 Jan 2022 21:44:51: 9000000 INFO @ Sat, 15 Jan 2022 21:44:53: 3000000 INFO @ Sat, 15 Jan 2022 21:44:56: 10000000 INFO @ Sat, 15 Jan 2022 21:44:58: 4000000 INFO @ Sat, 15 Jan 2022 21:45:01: 11000000 INFO @ Sat, 15 Jan 2022 21:45:03: 5000000 INFO @ Sat, 15 Jan 2022 21:45:06: 12000000 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 21:45:07: 6000000 INFO @ Sat, 15 Jan 2022 21:45:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.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 21:45:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:12: 13000000 INFO @ Sat, 15 Jan 2022 21:45:12: 7000000 INFO @ Sat, 15 Jan 2022 21:45:14: 1000000 INFO @ Sat, 15 Jan 2022 21:45:17: 14000000 INFO @ Sat, 15 Jan 2022 21:45:17: 8000000 INFO @ Sat, 15 Jan 2022 21:45:20: 2000000 INFO @ Sat, 15 Jan 2022 21:45:22: 15000000 INFO @ Sat, 15 Jan 2022 21:45:22: 9000000 INFO @ Sat, 15 Jan 2022 21:45:26: 3000000 INFO @ Sat, 15 Jan 2022 21:45:27: 16000000 INFO @ Sat, 15 Jan 2022 21:45:28: 10000000 INFO @ Sat, 15 Jan 2022 21:45:32: 17000000 INFO @ Sat, 15 Jan 2022 21:45:32: 4000000 INFO @ Sat, 15 Jan 2022 21:45:33: 11000000 INFO @ Sat, 15 Jan 2022 21:45:37: 18000000 INFO @ Sat, 15 Jan 2022 21:45:38: 12000000 INFO @ Sat, 15 Jan 2022 21:45:38: 5000000 INFO @ Sat, 15 Jan 2022 21:45:42: 19000000 INFO @ Sat, 15 Jan 2022 21:45:43: 13000000 INFO @ Sat, 15 Jan 2022 21:45:44: 6000000 INFO @ Sat, 15 Jan 2022 21:45:47: 20000000 INFO @ Sat, 15 Jan 2022 21:45:48: 14000000 INFO @ Sat, 15 Jan 2022 21:45:50: 7000000 INFO @ Sat, 15 Jan 2022 21:45:52: 21000000 INFO @ Sat, 15 Jan 2022 21:45:53: 15000000 INFO @ Sat, 15 Jan 2022 21:45:56: 8000000 INFO @ Sat, 15 Jan 2022 21:45:57: 22000000 INFO @ Sat, 15 Jan 2022 21:45:58: 16000000 INFO @ Sat, 15 Jan 2022 21:46:01: #1 tag size is determined as 27 bps INFO @ Sat, 15 Jan 2022 21:46:01: #1 tag size = 27 INFO @ Sat, 15 Jan 2022 21:46:01: #1 total tags in treatment: 10872099 INFO @ Sat, 15 Jan 2022 21:46:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:01: #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 21:46:02: #1 tags after filtering in treatment: 5750903 INFO @ Sat, 15 Jan 2022 21:46:02: #1 Redundant rate of treatment: 0.47 INFO @ Sat, 15 Jan 2022 21:46:02: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:02: 9000000 INFO @ Sat, 15 Jan 2022 21:46:02: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:46:02: 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 21:46:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.05_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/SRX9399162/SRX9399162.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:03: 17000000 INFO @ Sat, 15 Jan 2022 21:46:08: 10000000 INFO @ Sat, 15 Jan 2022 21:46:08: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:46:13: 19000000 INFO @ Sat, 15 Jan 2022 21:46:14: 11000000 INFO @ Sat, 15 Jan 2022 21:46:18: 20000000 INFO @ Sat, 15 Jan 2022 21:46:19: 12000000 INFO @ Sat, 15 Jan 2022 21:46:23: 21000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:25: 13000000 INFO @ Sat, 15 Jan 2022 21:46:28: 22000000 INFO @ Sat, 15 Jan 2022 21:46:31: 14000000 INFO @ Sat, 15 Jan 2022 21:46:32: #1 tag size is determined as 27 bps INFO @ Sat, 15 Jan 2022 21:46:32: #1 tag size = 27 INFO @ Sat, 15 Jan 2022 21:46:32: #1 total tags in treatment: 10872099 INFO @ Sat, 15 Jan 2022 21:46:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:32: #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 21:46:32: #1 tags after filtering in treatment: 5750903 INFO @ Sat, 15 Jan 2022 21:46:32: #1 Redundant rate of treatment: 0.47 INFO @ Sat, 15 Jan 2022 21:46:32: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:33: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:46:33: 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 21:46:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.10_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/SRX9399162/SRX9399162.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:37: 15000000 INFO @ Sat, 15 Jan 2022 21:46:43: 16000000 INFO @ Sat, 15 Jan 2022 21:46:48: 17000000 INFO @ Sat, 15 Jan 2022 21:46:53: 18000000 INFO @ Sat, 15 Jan 2022 21:46:59: 19000000 INFO @ Sat, 15 Jan 2022 21:47:04: 20000000 INFO @ Sat, 15 Jan 2022 21:47:10: 21000000 INFO @ Sat, 15 Jan 2022 21:47:15: 22000000 INFO @ Sat, 15 Jan 2022 21:47:19: #1 tag size is determined as 27 bps INFO @ Sat, 15 Jan 2022 21:47:19: #1 tag size = 27 INFO @ Sat, 15 Jan 2022 21:47:19: #1 total tags in treatment: 10872099 INFO @ Sat, 15 Jan 2022 21:47:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:47:19: #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 21:47:20: #1 tags after filtering in treatment: 5750903 INFO @ Sat, 15 Jan 2022 21:47:20: #1 Redundant rate of treatment: 0.47 INFO @ Sat, 15 Jan 2022 21:47:20: #1 finished! INFO @ Sat, 15 Jan 2022 21:47:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:47:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:47:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:47:20: 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 21:47:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399162/SRX9399162.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling