Job ID = 14521969 SRX = SRX7756558 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12418244 spots for SRR11119562/SRR11119562.sra Written 12418244 spots for SRR11119562/SRR11119562.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: 00:12:53 12418244 reads; of these: 12418244 (100.00%) were paired; of these: 2171682 (17.49%) aligned concordantly 0 times 9572716 (77.09%) aligned concordantly exactly 1 time 673846 (5.43%) aligned concordantly >1 times ---- 2171682 pairs aligned concordantly 0 times; of these: 817842 (37.66%) aligned discordantly 1 time ---- 1353840 pairs aligned 0 times concordantly or discordantly; of these: 2707680 mates make up the pairs; of these: 2383081 (88.01%) aligned 0 times 170307 (6.29%) aligned exactly 1 time 154292 (5.70%) aligned >1 times 90.40% overall alignment rate Time searching: 00:12:53 Overall time: 00:12:53 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] 1725354 / 11050439 = 0.1561 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 22:21:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.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 22:21:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:21:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:21:16: 1000000 INFO @ Sat, 15 Jan 2022 22:21:24: 2000000 INFO @ Sat, 15 Jan 2022 22:21:32: 3000000 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 22:21:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.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 22:21:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:21:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:21:40: 4000000 INFO @ Sat, 15 Jan 2022 22:21:48: 1000000 INFO @ Sat, 15 Jan 2022 22:21:49: 5000000 INFO @ Sat, 15 Jan 2022 22:21:58: 2000000 INFO @ Sat, 15 Jan 2022 22:21:59: 6000000 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 22:22:07: 3000000 INFO @ Sat, 15 Jan 2022 22:22:08: 7000000 INFO @ Sat, 15 Jan 2022 22:22:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.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 22:22:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:22:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:22:17: 4000000 INFO @ Sat, 15 Jan 2022 22:22:17: 8000000 INFO @ Sat, 15 Jan 2022 22:22:18: 1000000 INFO @ Sat, 15 Jan 2022 22:22:26: 5000000 INFO @ Sat, 15 Jan 2022 22:22:27: 9000000 INFO @ Sat, 15 Jan 2022 22:22:28: 2000000 INFO @ Sat, 15 Jan 2022 22:22:36: 6000000 INFO @ Sat, 15 Jan 2022 22:22:36: 10000000 INFO @ Sat, 15 Jan 2022 22:22:37: 3000000 INFO @ Sat, 15 Jan 2022 22:22:45: 7000000 INFO @ Sat, 15 Jan 2022 22:22:46: 11000000 INFO @ Sat, 15 Jan 2022 22:22:47: 4000000 INFO @ Sat, 15 Jan 2022 22:22:55: 8000000 INFO @ Sat, 15 Jan 2022 22:22:55: 12000000 INFO @ Sat, 15 Jan 2022 22:22:56: 5000000 INFO @ Sat, 15 Jan 2022 22:23:04: 9000000 INFO @ Sat, 15 Jan 2022 22:23:05: 13000000 INFO @ Sat, 15 Jan 2022 22:23:06: 6000000 INFO @ Sat, 15 Jan 2022 22:23:13: 10000000 INFO @ Sat, 15 Jan 2022 22:23:14: 14000000 INFO @ Sat, 15 Jan 2022 22:23:15: 7000000 INFO @ Sat, 15 Jan 2022 22:23:23: 11000000 INFO @ Sat, 15 Jan 2022 22:23:23: 15000000 INFO @ Sat, 15 Jan 2022 22:23:25: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:23:33: 16000000 INFO @ Sat, 15 Jan 2022 22:23:34: 12000000 INFO @ Sat, 15 Jan 2022 22:23:35: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:23:42: 17000000 INFO @ Sat, 15 Jan 2022 22:23:43: 13000000 INFO @ Sat, 15 Jan 2022 22:23:44: 10000000 INFO @ Sat, 15 Jan 2022 22:23:52: 18000000 INFO @ Sat, 15 Jan 2022 22:23:53: 14000000 INFO @ Sat, 15 Jan 2022 22:23:54: 11000000 INFO @ Sat, 15 Jan 2022 22:24:01: 19000000 INFO @ Sat, 15 Jan 2022 22:24:01: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:24:01: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:24:01: #1 total tags in treatment: 8624945 INFO @ Sat, 15 Jan 2022 22:24:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:24:01: #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 22:24:01: #1 tags after filtering in treatment: 6300169 INFO @ Sat, 15 Jan 2022 22:24:01: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:24:01: #1 finished! INFO @ Sat, 15 Jan 2022 22:24:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:24:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:24:02: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:24:02: 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 22:24:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.05_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/SRX7756558/SRX7756558.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:24:03: 15000000 INFO @ Sat, 15 Jan 2022 22:24:03: 12000000 INFO @ Sat, 15 Jan 2022 22:24:12: 16000000 INFO @ Sat, 15 Jan 2022 22:24:13: 13000000 INFO @ Sat, 15 Jan 2022 22:24:21: 17000000 INFO @ Sat, 15 Jan 2022 22:24:22: 14000000 INFO @ Sat, 15 Jan 2022 22:24:31: 18000000 INFO @ Sat, 15 Jan 2022 22:24:31: 15000000 INFO @ Sat, 15 Jan 2022 22:24:40: 19000000 INFO @ Sat, 15 Jan 2022 22:24:40: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:24:40: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:24:40: #1 total tags in treatment: 8624945 INFO @ Sat, 15 Jan 2022 22:24:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:24:40: #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 22:24:40: #1 tags after filtering in treatment: 6300169 INFO @ Sat, 15 Jan 2022 22:24:40: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:24:40: #1 finished! INFO @ Sat, 15 Jan 2022 22:24:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:24:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:24:40: 16000000 INFO @ Sat, 15 Jan 2022 22:24:40: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:24:40: 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 22:24:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.10_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/SRX7756558/SRX7756558.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:24:49: 17000000 INFO @ Sat, 15 Jan 2022 22:24:57: 18000000 INFO @ Sat, 15 Jan 2022 22:25:04: 19000000 INFO @ Sat, 15 Jan 2022 22:25:04: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:25:04: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:25:04: #1 total tags in treatment: 8624945 INFO @ Sat, 15 Jan 2022 22:25:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:25:04: #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 22:25:04: #1 tags after filtering in treatment: 6300169 INFO @ Sat, 15 Jan 2022 22:25:04: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:25:04: #1 finished! INFO @ Sat, 15 Jan 2022 22:25:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:25:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:25:05: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:25:05: 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 22:25:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.20_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/SRX7756558/SRX7756558.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756558/SRX7756558.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling