Job ID = 7113197 SRX = SRX8357698 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:26:32 prefetch.2.10.7: 1) Downloading 'SRR11806286'... 2020-07-22T05:26:32 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:27:20 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:27:21 prefetch.2.10.7: 'SRR11806286' is valid 2020-07-22T05:27:21 prefetch.2.10.7: 1) 'SRR11806286' was downloaded successfully 2020-07-22T05:27:21 prefetch.2.10.7: 'SRR11806286' has 0 unresolved dependencies Read 10539210 spots for SRR11806286/SRR11806286.sra Written 10539210 spots for SRR11806286/SRR11806286.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:50 10539210 reads; of these: 10539210 (100.00%) were paired; of these: 570331 (5.41%) aligned concordantly 0 times 9084997 (86.20%) aligned concordantly exactly 1 time 883882 (8.39%) aligned concordantly >1 times ---- 570331 pairs aligned concordantly 0 times; of these: 43885 (7.69%) aligned discordantly 1 time ---- 526446 pairs aligned 0 times concordantly or discordantly; of these: 1052892 mates make up the pairs; of these: 866635 (82.31%) aligned 0 times 138537 (13.16%) aligned exactly 1 time 47720 (4.53%) aligned >1 times 95.89% overall alignment rate Time searching: 00:05:51 Overall time: 00:05:51 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] 1418210 / 9995189 = 0.1419 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 14:39:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.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 14:39:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:39:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:39:18: 1000000 INFO @ Wed, 22 Jul 2020 14:39:24: 2000000 INFO @ Wed, 22 Jul 2020 14:39:29: 3000000 INFO @ Wed, 22 Jul 2020 14:39:35: 4000000 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 14:39:41: 5000000 INFO @ Wed, 22 Jul 2020 14:39:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.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 14:39:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:39:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:39:48: 6000000 INFO @ Wed, 22 Jul 2020 14:39:49: 1000000 INFO @ Wed, 22 Jul 2020 14:39:55: 7000000 INFO @ Wed, 22 Jul 2020 14:39:55: 2000000 INFO @ Wed, 22 Jul 2020 14:40:01: 3000000 INFO @ Wed, 22 Jul 2020 14:40:02: 8000000 INFO @ Wed, 22 Jul 2020 14:40:08: 4000000 INFO @ Wed, 22 Jul 2020 14:40:09: 9000000 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 14:40:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.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 14:40:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:40:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:40:14: 5000000 INFO @ Wed, 22 Jul 2020 14:40:16: 10000000 INFO @ Wed, 22 Jul 2020 14:40:19: 1000000 INFO @ Wed, 22 Jul 2020 14:40:21: 6000000 INFO @ Wed, 22 Jul 2020 14:40:23: 11000000 INFO @ Wed, 22 Jul 2020 14:40:25: 2000000 INFO @ Wed, 22 Jul 2020 14:40:29: 7000000 INFO @ Wed, 22 Jul 2020 14:40:30: 12000000 INFO @ Wed, 22 Jul 2020 14:40:32: 3000000 INFO @ Wed, 22 Jul 2020 14:40:36: 8000000 INFO @ Wed, 22 Jul 2020 14:40:38: 13000000 INFO @ Wed, 22 Jul 2020 14:40:38: 4000000 INFO @ Wed, 22 Jul 2020 14:40:43: 9000000 INFO @ Wed, 22 Jul 2020 14:40:45: 14000000 INFO @ Wed, 22 Jul 2020 14:40:45: 5000000 INFO @ Wed, 22 Jul 2020 14:40:50: 10000000 INFO @ Wed, 22 Jul 2020 14:40:52: 15000000 INFO @ Wed, 22 Jul 2020 14:40:52: 6000000 INFO @ Wed, 22 Jul 2020 14:40:57: 11000000 INFO @ Wed, 22 Jul 2020 14:40:59: 16000000 INFO @ Wed, 22 Jul 2020 14:40:59: 7000000 INFO @ Wed, 22 Jul 2020 14:41:04: 12000000 INFO @ Wed, 22 Jul 2020 14:41:07: 17000000 INFO @ Wed, 22 Jul 2020 14:41:07: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:41:09: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:41:09: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:41:09: #1 total tags in treatment: 8553718 INFO @ Wed, 22 Jul 2020 14:41:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:41:09: #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 14:41:09: #1 tags after filtering in treatment: 4707335 INFO @ Wed, 22 Jul 2020 14:41:09: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:41:09: #1 finished! INFO @ Wed, 22 Jul 2020 14:41:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:41:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:41:10: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:41:10: 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 14:41:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.05_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/SRX8357698/SRX8357698.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:41:12: 13000000 INFO @ Wed, 22 Jul 2020 14:41:14: 9000000 INFO @ Wed, 22 Jul 2020 14:41:19: 14000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:41:22: 10000000 INFO @ Wed, 22 Jul 2020 14:41:26: 15000000 INFO @ Wed, 22 Jul 2020 14:41:29: 11000000 INFO @ Wed, 22 Jul 2020 14:41:34: 16000000 INFO @ Wed, 22 Jul 2020 14:41:37: 12000000 INFO @ Wed, 22 Jul 2020 14:41:41: 17000000 INFO @ Wed, 22 Jul 2020 14:41:43: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:41:43: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:41:43: #1 total tags in treatment: 8553718 INFO @ Wed, 22 Jul 2020 14:41:43: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:41:43: #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 14:41:44: #1 tags after filtering in treatment: 4707335 INFO @ Wed, 22 Jul 2020 14:41:44: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:41:44: #1 finished! INFO @ Wed, 22 Jul 2020 14:41:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:41:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:41:44: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:41:44: 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 14:41:44: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 14:41:44: 13000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.10_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/SRX8357698/SRX8357698.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:41:51: 14000000 INFO @ Wed, 22 Jul 2020 14:41:57: 15000000 INFO @ Wed, 22 Jul 2020 14:42:04: 16000000 INFO @ Wed, 22 Jul 2020 14:42:11: 17000000 INFO @ Wed, 22 Jul 2020 14:42:13: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:42:13: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:42:13: #1 total tags in treatment: 8553718 INFO @ Wed, 22 Jul 2020 14:42:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:42:13: #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 14:42:13: #1 tags after filtering in treatment: 4707335 INFO @ Wed, 22 Jul 2020 14:42:13: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:42:13: #1 finished! INFO @ Wed, 22 Jul 2020 14:42:13: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:42:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:42:13: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:42:13: 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 14:42:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.20_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/SRX8357698/SRX8357698.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357698/SRX8357698.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling