Job ID = 7113355 SRX = SRX8357706 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:32:30 prefetch.2.10.7: 1) Downloading 'SRR11806244'... 2020-07-22T05:32:30 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:39:27 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:39:27 prefetch.2.10.7: 1) 'SRR11806244' was downloaded successfully 2020-07-22T05:39:27 prefetch.2.10.7: 'SRR11806244' has 0 unresolved dependencies Read 17960133 spots for SRR11806244/SRR11806244.sra Written 17960133 spots for SRR11806244/SRR11806244.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: 00:27:47 17960133 reads; of these: 17960133 (100.00%) were paired; of these: 4786530 (26.65%) aligned concordantly 0 times 9359032 (52.11%) aligned concordantly exactly 1 time 3814571 (21.24%) aligned concordantly >1 times ---- 4786530 pairs aligned concordantly 0 times; of these: 960198 (20.06%) aligned discordantly 1 time ---- 3826332 pairs aligned 0 times concordantly or discordantly; of these: 7652664 mates make up the pairs; of these: 6480236 (84.68%) aligned 0 times 308258 (4.03%) aligned exactly 1 time 864170 (11.29%) aligned >1 times 81.96% overall alignment rate Time searching: 00:27:47 Overall time: 00:27:47 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 24 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] 6255793 / 14047510 = 0.4453 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 15:18:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.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 15:18:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:19: 1000000 INFO @ Wed, 22 Jul 2020 15:18:28: 2000000 INFO @ Wed, 22 Jul 2020 15:18:36: 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 15:18:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.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 15:18:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:45: 4000000 INFO @ Wed, 22 Jul 2020 15:18:49: 1000000 INFO @ Wed, 22 Jul 2020 15:18:54: 5000000 INFO @ Wed, 22 Jul 2020 15:18:58: 2000000 INFO @ Wed, 22 Jul 2020 15:19:03: 6000000 INFO @ Wed, 22 Jul 2020 15:19:08: 3000000 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 15:19:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.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 15:19:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:19:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:19:13: 7000000 INFO @ Wed, 22 Jul 2020 15:19:18: 4000000 INFO @ Wed, 22 Jul 2020 15:19:21: 1000000 INFO @ Wed, 22 Jul 2020 15:19:22: 8000000 INFO @ Wed, 22 Jul 2020 15:19:28: 5000000 INFO @ Wed, 22 Jul 2020 15:19:31: 9000000 INFO @ Wed, 22 Jul 2020 15:19:31: 2000000 INFO @ Wed, 22 Jul 2020 15:19:38: 6000000 INFO @ Wed, 22 Jul 2020 15:19:40: 10000000 INFO @ Wed, 22 Jul 2020 15:19:41: 3000000 INFO @ Wed, 22 Jul 2020 15:19:47: 7000000 INFO @ Wed, 22 Jul 2020 15:19:50: 11000000 INFO @ Wed, 22 Jul 2020 15:19:52: 4000000 INFO @ Wed, 22 Jul 2020 15:19:57: 8000000 INFO @ Wed, 22 Jul 2020 15:19:59: 12000000 INFO @ Wed, 22 Jul 2020 15:20:02: 5000000 INFO @ Wed, 22 Jul 2020 15:20:07: 9000000 INFO @ Wed, 22 Jul 2020 15:20:08: 13000000 INFO @ Wed, 22 Jul 2020 15:20:11: 6000000 INFO @ Wed, 22 Jul 2020 15:20:16: 10000000 INFO @ Wed, 22 Jul 2020 15:20:17: 14000000 INFO @ Wed, 22 Jul 2020 15:20:21: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:20:25: 11000000 INFO @ Wed, 22 Jul 2020 15:20:27: 15000000 INFO @ Wed, 22 Jul 2020 15:20:29: 8000000 INFO @ Wed, 22 Jul 2020 15:20:34: 12000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:20:36: 16000000 INFO @ Wed, 22 Jul 2020 15:20:38: 9000000 INFO @ Wed, 22 Jul 2020 15:20:43: 13000000 INFO @ Wed, 22 Jul 2020 15:20:45: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:20:45: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:20:45: #1 total tags in treatment: 7107800 INFO @ Wed, 22 Jul 2020 15:20:45: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:20:45: #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 15:20:45: #1 tags after filtering in treatment: 3705514 INFO @ Wed, 22 Jul 2020 15:20:45: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Jul 2020 15:20:45: #1 finished! INFO @ Wed, 22 Jul 2020 15:20:45: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:20:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:20:45: #2 number of paired peaks: 37 WARNING @ Wed, 22 Jul 2020 15:20:45: Too few paired peaks (37) 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 15:20:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.05_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/SRX8357706/SRX8357706.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:20:47: 10000000 INFO @ Wed, 22 Jul 2020 15:20:53: 14000000 INFO @ Wed, 22 Jul 2020 15:20:55: 11000000 INFO @ Wed, 22 Jul 2020 15:21:01: 15000000 INFO @ Wed, 22 Jul 2020 15:21:04: 12000000 INFO @ Wed, 22 Jul 2020 15:21:10: 16000000 INFO @ Wed, 22 Jul 2020 15:21:12: 13000000 INFO @ Wed, 22 Jul 2020 15:21:18: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:21:18: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:21:18: #1 total tags in treatment: 7107800 INFO @ Wed, 22 Jul 2020 15:21:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:21:18: #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 15:21:18: #1 tags after filtering in treatment: 3705514 INFO @ Wed, 22 Jul 2020 15:21:18: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Jul 2020 15:21:18: #1 finished! INFO @ Wed, 22 Jul 2020 15:21:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:21:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:21:18: #2 number of paired peaks: 37 WARNING @ Wed, 22 Jul 2020 15:21:18: Too few paired peaks (37) 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 15:21:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.10_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/SRX8357706/SRX8357706.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:21:20: 14000000 INFO @ Wed, 22 Jul 2020 15:21:28: 15000000 INFO @ Wed, 22 Jul 2020 15:21:36: 16000000 INFO @ Wed, 22 Jul 2020 15:21:43: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:21:43: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:21:43: #1 total tags in treatment: 7107800 INFO @ Wed, 22 Jul 2020 15:21:43: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:21:43: #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 15:21:43: #1 tags after filtering in treatment: 3705514 INFO @ Wed, 22 Jul 2020 15:21:43: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Jul 2020 15:21:43: #1 finished! INFO @ Wed, 22 Jul 2020 15:21:43: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:21:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:21:44: #2 number of paired peaks: 37 WARNING @ Wed, 22 Jul 2020 15:21:44: Too few paired peaks (37) 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 15:21:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.20_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/SRX8357706/SRX8357706.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357706/SRX8357706.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling