Job ID = 7116657 SRX = SRX8639481 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:16:44 prefetch.2.10.7: 1) Downloading 'SRR12117045'... 2020-07-22T06:16:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:20:58 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:20:58 prefetch.2.10.7: 1) 'SRR12117045' was downloaded successfully 2020-07-22T06:20:58 prefetch.2.10.7: 'SRR12117045' has 0 unresolved dependencies Read 25305714 spots for SRR12117045/SRR12117045.sra Written 25305714 spots for SRR12117045/SRR12117045.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: 00:09:44 25305714 reads; of these: 25305714 (100.00%) were paired; of these: 10110288 (39.95%) aligned concordantly 0 times 13965089 (55.19%) aligned concordantly exactly 1 time 1230337 (4.86%) aligned concordantly >1 times ---- 10110288 pairs aligned concordantly 0 times; of these: 703024 (6.95%) aligned discordantly 1 time ---- 9407264 pairs aligned 0 times concordantly or discordantly; of these: 18814528 mates make up the pairs; of these: 18420369 (97.91%) aligned 0 times 256589 (1.36%) aligned exactly 1 time 137570 (0.73%) aligned >1 times 63.60% overall alignment rate Time searching: 00:09:44 Overall time: 00:09:44 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 16 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] 176095 / 15845329 = 0.0111 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 15:39:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.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 15:39:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:24: 1000000 INFO @ Wed, 22 Jul 2020 15:39:28: 2000000 INFO @ Wed, 22 Jul 2020 15:39:32: 3000000 INFO @ Wed, 22 Jul 2020 15:39:36: 4000000 INFO @ Wed, 22 Jul 2020 15:39:41: 5000000 INFO @ Wed, 22 Jul 2020 15:39:45: 6000000 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 15:39:49: 7000000 INFO @ Wed, 22 Jul 2020 15:39:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.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 15:39:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:53: 8000000 INFO @ Wed, 22 Jul 2020 15:39:54: 1000000 INFO @ Wed, 22 Jul 2020 15:39:58: 9000000 INFO @ Wed, 22 Jul 2020 15:39:58: 2000000 INFO @ Wed, 22 Jul 2020 15:40:02: 10000000 INFO @ Wed, 22 Jul 2020 15:40:03: 3000000 INFO @ Wed, 22 Jul 2020 15:40:06: 11000000 INFO @ Wed, 22 Jul 2020 15:40:07: 4000000 INFO @ Wed, 22 Jul 2020 15:40:11: 12000000 INFO @ Wed, 22 Jul 2020 15:40:11: 5000000 INFO @ Wed, 22 Jul 2020 15:40:15: 13000000 INFO @ Wed, 22 Jul 2020 15:40:15: 6000000 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 15:40:19: 14000000 INFO @ Wed, 22 Jul 2020 15:40:20: 7000000 INFO @ Wed, 22 Jul 2020 15:40:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.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 15:40:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:24: 15000000 INFO @ Wed, 22 Jul 2020 15:40:24: 8000000 INFO @ Wed, 22 Jul 2020 15:40:24: 1000000 INFO @ Wed, 22 Jul 2020 15:40:28: 16000000 INFO @ Wed, 22 Jul 2020 15:40:28: 9000000 INFO @ Wed, 22 Jul 2020 15:40:28: 2000000 INFO @ Wed, 22 Jul 2020 15:40:32: 17000000 INFO @ Wed, 22 Jul 2020 15:40:32: 10000000 INFO @ Wed, 22 Jul 2020 15:40:33: 3000000 INFO @ Wed, 22 Jul 2020 15:40:36: 18000000 INFO @ Wed, 22 Jul 2020 15:40:37: 11000000 INFO @ Wed, 22 Jul 2020 15:40:37: 4000000 INFO @ Wed, 22 Jul 2020 15:40:41: 19000000 INFO @ Wed, 22 Jul 2020 15:40:41: 12000000 INFO @ Wed, 22 Jul 2020 15:40:41: 5000000 INFO @ Wed, 22 Jul 2020 15:40:45: 20000000 INFO @ Wed, 22 Jul 2020 15:40:45: 13000000 INFO @ Wed, 22 Jul 2020 15:40:46: 6000000 INFO @ Wed, 22 Jul 2020 15:40:49: 21000000 INFO @ Wed, 22 Jul 2020 15:40:49: 14000000 INFO @ Wed, 22 Jul 2020 15:40:50: 7000000 INFO @ Wed, 22 Jul 2020 15:40:53: 22000000 INFO @ Wed, 22 Jul 2020 15:40:54: 15000000 INFO @ Wed, 22 Jul 2020 15:40:54: 8000000 INFO @ Wed, 22 Jul 2020 15:40:58: 23000000 INFO @ Wed, 22 Jul 2020 15:40:58: 16000000 INFO @ Wed, 22 Jul 2020 15:40:59: 9000000 INFO @ Wed, 22 Jul 2020 15:41:02: 24000000 INFO @ Wed, 22 Jul 2020 15:41:02: 17000000 INFO @ Wed, 22 Jul 2020 15:41:03: 10000000 INFO @ Wed, 22 Jul 2020 15:41:06: 25000000 INFO @ Wed, 22 Jul 2020 15:41:07: 18000000 INFO @ Wed, 22 Jul 2020 15:41:07: 11000000 INFO @ Wed, 22 Jul 2020 15:41:10: 26000000 INFO @ Wed, 22 Jul 2020 15:41:11: 19000000 INFO @ Wed, 22 Jul 2020 15:41:12: 12000000 INFO @ Wed, 22 Jul 2020 15:41:15: 27000000 INFO @ Wed, 22 Jul 2020 15:41:16: 20000000 INFO @ Wed, 22 Jul 2020 15:41:16: 13000000 INFO @ Wed, 22 Jul 2020 15:41:19: 28000000 INFO @ Wed, 22 Jul 2020 15:41:20: 21000000 INFO @ Wed, 22 Jul 2020 15:41:21: 14000000 INFO @ Wed, 22 Jul 2020 15:41:24: 29000000 INFO @ Wed, 22 Jul 2020 15:41:24: 22000000 INFO @ Wed, 22 Jul 2020 15:41:25: 15000000 INFO @ Wed, 22 Jul 2020 15:41:28: 30000000 INFO @ Wed, 22 Jul 2020 15:41:29: 23000000 INFO @ Wed, 22 Jul 2020 15:41:30: 16000000 INFO @ Wed, 22 Jul 2020 15:41:32: 31000000 INFO @ Wed, 22 Jul 2020 15:41:33: 24000000 INFO @ Wed, 22 Jul 2020 15:41:34: 17000000 INFO @ Wed, 22 Jul 2020 15:41:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:41:36: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:41:36: #1 total tags in treatment: 15022372 INFO @ Wed, 22 Jul 2020 15:41:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:41:36: #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 15:41:36: #1 tags after filtering in treatment: 9436433 INFO @ Wed, 22 Jul 2020 15:41:36: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:41:36: #1 finished! INFO @ Wed, 22 Jul 2020 15:41:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:41:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:41:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:41:37: 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 15:41:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:41:37: 25000000 INFO @ Wed, 22 Jul 2020 15:41:38: 18000000 INFO @ Wed, 22 Jul 2020 15:41:42: 26000000 INFO @ Wed, 22 Jul 2020 15:41:43: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:41:46: 27000000 INFO @ Wed, 22 Jul 2020 15:41:47: 20000000 INFO @ Wed, 22 Jul 2020 15:41:50: 28000000 INFO @ Wed, 22 Jul 2020 15:41:52: 21000000 INFO @ Wed, 22 Jul 2020 15:41:55: 29000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:41:56: 22000000 INFO @ Wed, 22 Jul 2020 15:41:59: 30000000 INFO @ Wed, 22 Jul 2020 15:42:01: 23000000 INFO @ Wed, 22 Jul 2020 15:42:03: 31000000 INFO @ Wed, 22 Jul 2020 15:42:05: 24000000 INFO @ Wed, 22 Jul 2020 15:42:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:07: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:07: #1 total tags in treatment: 15022372 INFO @ Wed, 22 Jul 2020 15:42:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:07: #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 15:42:07: #1 tags after filtering in treatment: 9436433 INFO @ Wed, 22 Jul 2020 15:42:07: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:42:07: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:08: 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 15:42:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.10_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/SRX8639481/SRX8639481.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:42:10: 25000000 INFO @ Wed, 22 Jul 2020 15:42:14: 26000000 INFO @ Wed, 22 Jul 2020 15:42:18: 27000000 INFO @ Wed, 22 Jul 2020 15:42:23: 28000000 INFO @ Wed, 22 Jul 2020 15:42:27: 29000000 INFO @ Wed, 22 Jul 2020 15:42:31: 30000000 INFO @ Wed, 22 Jul 2020 15:42:36: 31000000 INFO @ Wed, 22 Jul 2020 15:42:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:40: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:40: #1 total tags in treatment: 15022372 INFO @ Wed, 22 Jul 2020 15:42:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:40: #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 15:42:40: #1 tags after filtering in treatment: 9436433 INFO @ Wed, 22 Jul 2020 15:42:40: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:42:40: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:40: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:40: 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 @ Wed, 22 Jul 2020 15:42:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639481/SRX8639481.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling