Job ID = 12531662 SRX = SRX4555035 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13271169 spots for SRR7696730/SRR7696730.sra Written 13271169 spots for SRR7696730/SRR7696730.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: 00:15:08 13271169 reads; of these: 13271169 (100.00%) were paired; of these: 763976 (5.76%) aligned concordantly 0 times 6178554 (46.56%) aligned concordantly exactly 1 time 6328639 (47.69%) aligned concordantly >1 times ---- 763976 pairs aligned concordantly 0 times; of these: 49642 (6.50%) aligned discordantly 1 time ---- 714334 pairs aligned 0 times concordantly or discordantly; of these: 1428668 mates make up the pairs; of these: 1104997 (77.34%) aligned 0 times 170550 (11.94%) aligned exactly 1 time 153121 (10.72%) aligned >1 times 95.84% overall alignment rate Time searching: 00:15:08 Overall time: 00:15:08 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 20 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] 2475331 / 5830449 = 0.4246 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:22:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.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, 17 Apr 2021 09:22:03: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:22:03: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:22:10: 1000000 INFO @ Sat, 17 Apr 2021 09:22:17: 2000000 INFO @ Sat, 17 Apr 2021 09:22:24: 3000000 INFO @ Sat, 17 Apr 2021 09:22:30: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:22:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.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, 17 Apr 2021 09:22:33: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:22:33: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:22:38: 5000000 INFO @ Sat, 17 Apr 2021 09:22:41: 1000000 INFO @ Sat, 17 Apr 2021 09:22:45: 6000000 INFO @ Sat, 17 Apr 2021 09:22:50: 2000000 INFO @ Sat, 17 Apr 2021 09:22:53: 7000000 INFO @ Sat, 17 Apr 2021 09:22:58: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:23:00: 8000000 INFO @ Sat, 17 Apr 2021 09:23:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.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, 17 Apr 2021 09:23:03: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:23:03: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:23:06: 4000000 INFO @ Sat, 17 Apr 2021 09:23:07: 9000000 INFO @ Sat, 17 Apr 2021 09:23:10: 1000000 INFO @ Sat, 17 Apr 2021 09:23:14: 5000000 INFO @ Sat, 17 Apr 2021 09:23:14: 10000000 INFO @ Sat, 17 Apr 2021 09:23:18: 2000000 INFO @ Sat, 17 Apr 2021 09:23:22: 11000000 INFO @ Sat, 17 Apr 2021 09:23:23: 6000000 INFO @ Sat, 17 Apr 2021 09:23:26: 3000000 INFO @ Sat, 17 Apr 2021 09:23:29: 12000000 INFO @ Sat, 17 Apr 2021 09:23:32: 7000000 INFO @ Sat, 17 Apr 2021 09:23:33: 4000000 INFO @ Sat, 17 Apr 2021 09:23:36: 13000000 INFO @ Sat, 17 Apr 2021 09:23:40: 8000000 INFO @ Sat, 17 Apr 2021 09:23:41: 5000000 INFO @ Sat, 17 Apr 2021 09:23:43: 14000000 INFO @ Sat, 17 Apr 2021 09:23:48: 9000000 INFO @ Sat, 17 Apr 2021 09:23:49: 6000000 INFO @ Sat, 17 Apr 2021 09:23:50: 15000000 INFO @ Sat, 17 Apr 2021 09:23:56: 7000000 INFO @ Sat, 17 Apr 2021 09:23:56: 10000000 INFO @ Sat, 17 Apr 2021 09:23:57: 16000000 INFO @ Sat, 17 Apr 2021 09:24:04: 8000000 INFO @ Sat, 17 Apr 2021 09:24:04: 11000000 INFO @ Sat, 17 Apr 2021 09:24:05: 17000000 INFO @ Sat, 17 Apr 2021 09:24:11: 9000000 INFO @ Sat, 17 Apr 2021 09:24:12: 18000000 INFO @ Sat, 17 Apr 2021 09:24:13: 12000000 INFO @ Sat, 17 Apr 2021 09:24:18: 10000000 INFO @ Sat, 17 Apr 2021 09:24:20: 19000000 INFO @ Sat, 17 Apr 2021 09:24:21: 13000000 INFO @ Sat, 17 Apr 2021 09:24:25: 11000000 INFO @ Sat, 17 Apr 2021 09:24:28: 20000000 INFO @ Sat, 17 Apr 2021 09:24:28: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:24:32: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:24:32: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:24:32: #1 total tags in treatment: 10035130 INFO @ Sat, 17 Apr 2021 09:24:32: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:24:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:24:32: 12000000 INFO @ Sat, 17 Apr 2021 09:24:32: #1 tags after filtering in treatment: 2547136 INFO @ Sat, 17 Apr 2021 09:24:32: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:24:32: #1 finished! INFO @ Sat, 17 Apr 2021 09:24:32: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:24:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:24:32: #2 number of paired peaks: 80 WARNING @ Sat, 17 Apr 2021 09:24:32: Too few paired peaks (80) 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, 17 Apr 2021 09:24:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.05_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/SRX4555035/SRX4555035.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:24:36: 15000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:24:39: 13000000 INFO @ Sat, 17 Apr 2021 09:24:44: 16000000 INFO @ Sat, 17 Apr 2021 09:24:46: 14000000 INFO @ Sat, 17 Apr 2021 09:24:53: 17000000 INFO @ Sat, 17 Apr 2021 09:24:53: 15000000 INFO @ Sat, 17 Apr 2021 09:25:00: 16000000 INFO @ Sat, 17 Apr 2021 09:25:01: 18000000 INFO @ Sat, 17 Apr 2021 09:25:07: 17000000 INFO @ Sat, 17 Apr 2021 09:25:09: 19000000 INFO @ Sat, 17 Apr 2021 09:25:15: 18000000 INFO @ Sat, 17 Apr 2021 09:25:17: 20000000 INFO @ Sat, 17 Apr 2021 09:25:21: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:25:21: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:25:21: #1 total tags in treatment: 10035130 INFO @ Sat, 17 Apr 2021 09:25:21: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:25:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:25:22: #1 tags after filtering in treatment: 2547136 INFO @ Sat, 17 Apr 2021 09:25:22: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:25:22: #1 finished! INFO @ Sat, 17 Apr 2021 09:25:22: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:25:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:25:22: #2 number of paired peaks: 80 WARNING @ Sat, 17 Apr 2021 09:25:22: Too few paired peaks (80) 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, 17 Apr 2021 09:25:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.10_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/SRX4555035/SRX4555035.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:25:22: 19000000 INFO @ Sat, 17 Apr 2021 09:25:29: 20000000 INFO @ Sat, 17 Apr 2021 09:25:33: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:25:33: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:25:33: #1 total tags in treatment: 10035130 INFO @ Sat, 17 Apr 2021 09:25:33: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:25:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:25:33: #1 tags after filtering in treatment: 2547136 INFO @ Sat, 17 Apr 2021 09:25:33: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:25:33: #1 finished! INFO @ Sat, 17 Apr 2021 09:25:33: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:25:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:25:33: #2 number of paired peaks: 80 WARNING @ Sat, 17 Apr 2021 09:25:33: Too few paired peaks (80) 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, 17 Apr 2021 09:25:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.20_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/SRX4555035/SRX4555035.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555035/SRX4555035.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling