Job ID = 7112058 SRX = SRX8357680 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:18:49 prefetch.2.10.7: 1) Downloading 'SRR11806268'... 2020-07-22T05:18:49 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:21:38 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:21:38 prefetch.2.10.7: 1) 'SRR11806268' was downloaded successfully 2020-07-22T05:21:38 prefetch.2.10.7: 'SRR11806268' has 0 unresolved dependencies Read 12018879 spots for SRR11806268/SRR11806268.sra Written 12018879 spots for SRR11806268/SRR11806268.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: 00:16:42 12018879 reads; of these: 12018879 (100.00%) were paired; of these: 1516232 (12.62%) aligned concordantly 0 times 8870724 (73.81%) aligned concordantly exactly 1 time 1631923 (13.58%) aligned concordantly >1 times ---- 1516232 pairs aligned concordantly 0 times; of these: 896957 (59.16%) aligned discordantly 1 time ---- 619275 pairs aligned 0 times concordantly or discordantly; of these: 1238550 mates make up the pairs; of these: 773203 (62.43%) aligned 0 times 115698 (9.34%) aligned exactly 1 time 349649 (28.23%) aligned >1 times 96.78% overall alignment rate Time searching: 00:16:42 Overall time: 00:16:42 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] 2025910 / 11321861 = 0.1789 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:48:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.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 @ Wed, 22 Jul 2020 14:48:31: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:48:31: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:48:40: 1000000 INFO @ Wed, 22 Jul 2020 14:48:49: 2000000 INFO @ Wed, 22 Jul 2020 14:48:58: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:49:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.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 @ Wed, 22 Jul 2020 14:49:01: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:49:01: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:49:09: 4000000 INFO @ Wed, 22 Jul 2020 14:49:14: 1000000 INFO @ Wed, 22 Jul 2020 14:49:20: 5000000 INFO @ Wed, 22 Jul 2020 14:49:27: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:49:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.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 @ Wed, 22 Jul 2020 14:49:31: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:49:31: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:49:31: 6000000 INFO @ Wed, 22 Jul 2020 14:49:40: 3000000 INFO @ Wed, 22 Jul 2020 14:49:43: 1000000 INFO @ Wed, 22 Jul 2020 14:49:43: 7000000 INFO @ Wed, 22 Jul 2020 14:49:52: 4000000 INFO @ Wed, 22 Jul 2020 14:49:54: 2000000 INFO @ Wed, 22 Jul 2020 14:49:54: 8000000 INFO @ Wed, 22 Jul 2020 14:50:05: 5000000 INFO @ Wed, 22 Jul 2020 14:50:06: 3000000 INFO @ Wed, 22 Jul 2020 14:50:06: 9000000 INFO @ Wed, 22 Jul 2020 14:50:17: 4000000 INFO @ Wed, 22 Jul 2020 14:50:17: 10000000 INFO @ Wed, 22 Jul 2020 14:50:18: 6000000 INFO @ Wed, 22 Jul 2020 14:50:28: 5000000 INFO @ Wed, 22 Jul 2020 14:50:29: 11000000 INFO @ Wed, 22 Jul 2020 14:50:31: 7000000 INFO @ Wed, 22 Jul 2020 14:50:40: 6000000 INFO @ Wed, 22 Jul 2020 14:50:40: 12000000 INFO @ Wed, 22 Jul 2020 14:50:43: 8000000 INFO @ Wed, 22 Jul 2020 14:50:51: 7000000 INFO @ Wed, 22 Jul 2020 14:50:51: 13000000 INFO @ Wed, 22 Jul 2020 14:50:56: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:51:02: 8000000 INFO @ Wed, 22 Jul 2020 14:51:02: 14000000 INFO @ Wed, 22 Jul 2020 14:51:09: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:51:13: 9000000 INFO @ Wed, 22 Jul 2020 14:51:14: 15000000 INFO @ Wed, 22 Jul 2020 14:51:22: 11000000 INFO @ Wed, 22 Jul 2020 14:51:25: 10000000 INFO @ Wed, 22 Jul 2020 14:51:25: 16000000 INFO @ Wed, 22 Jul 2020 14:51:34: 12000000 INFO @ Wed, 22 Jul 2020 14:51:36: 11000000 INFO @ Wed, 22 Jul 2020 14:51:37: 17000000 INFO @ Wed, 22 Jul 2020 14:51:47: 13000000 INFO @ Wed, 22 Jul 2020 14:51:48: 12000000 INFO @ Wed, 22 Jul 2020 14:51:48: 18000000 INFO @ Wed, 22 Jul 2020 14:51:59: 14000000 INFO @ Wed, 22 Jul 2020 14:51:59: 13000000 INFO @ Wed, 22 Jul 2020 14:51:59: 19000000 INFO @ Wed, 22 Jul 2020 14:52:02: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 14:52:02: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 14:52:02: #1 total tags in treatment: 8560637 INFO @ Wed, 22 Jul 2020 14:52:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:52:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:52:02: #1 tags after filtering in treatment: 4499174 INFO @ Wed, 22 Jul 2020 14:52:02: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Jul 2020 14:52:02: #1 finished! INFO @ Wed, 22 Jul 2020 14:52:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:52:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:52:02: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:52:02: 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 @ Wed, 22 Jul 2020 14:52:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.05_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/SRX8357680/SRX8357680.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:52:10: 14000000 INFO @ Wed, 22 Jul 2020 14:52:11: 15000000 INFO @ Wed, 22 Jul 2020 14:52:22: 15000000 INFO @ Wed, 22 Jul 2020 14:52:24: 16000000 INFO @ Wed, 22 Jul 2020 14:52:33: 16000000 INFO @ Wed, 22 Jul 2020 14:52:37: 17000000 INFO @ Wed, 22 Jul 2020 14:52:44: 17000000 INFO @ Wed, 22 Jul 2020 14:52:50: 18000000 INFO @ Wed, 22 Jul 2020 14:52:55: 18000000 INFO @ Wed, 22 Jul 2020 14:53:02: 19000000 INFO @ Wed, 22 Jul 2020 14:53:04: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 14:53:04: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 14:53:04: #1 total tags in treatment: 8560637 INFO @ Wed, 22 Jul 2020 14:53:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:53:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:53:05: #1 tags after filtering in treatment: 4499174 INFO @ Wed, 22 Jul 2020 14:53:05: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Jul 2020 14:53:05: #1 finished! INFO @ Wed, 22 Jul 2020 14:53:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:53:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:53:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:53:05: 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 @ Wed, 22 Jul 2020 14:53:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.10_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/SRX8357680/SRX8357680.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:53:06: 19000000 INFO @ Wed, 22 Jul 2020 14:53:08: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 14:53:08: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 14:53:08: #1 total tags in treatment: 8560637 INFO @ Wed, 22 Jul 2020 14:53:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:53:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:53:08: #1 tags after filtering in treatment: 4499174 INFO @ Wed, 22 Jul 2020 14:53:08: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Jul 2020 14:53:08: #1 finished! INFO @ Wed, 22 Jul 2020 14:53:08: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:53:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:53:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:53:08: 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 @ Wed, 22 Jul 2020 14:53:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.20_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/SRX8357680/SRX8357680.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357680/SRX8357680.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling