Job ID = 7118263 SRX = SRX8639586 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:12:23 prefetch.2.10.7: 1) Downloading 'SRR12117024'... 2020-07-22T07:12:23 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:15:06 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:15:06 prefetch.2.10.7: 1) 'SRR12117024' was downloaded successfully 2020-07-22T07:15:06 prefetch.2.10.7: 'SRR12117024' has 0 unresolved dependencies Read 32406659 spots for SRR12117024/SRR12117024.sra Written 32406659 spots for SRR12117024/SRR12117024.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: 00:08:34 32406659 reads; of these: 32406659 (100.00%) were paired; of these: 19322485 (59.63%) aligned concordantly 0 times 11856691 (36.59%) aligned concordantly exactly 1 time 1227483 (3.79%) aligned concordantly >1 times ---- 19322485 pairs aligned concordantly 0 times; of these: 88966 (0.46%) aligned discordantly 1 time ---- 19233519 pairs aligned 0 times concordantly or discordantly; of these: 38467038 mates make up the pairs; of these: 38274753 (99.50%) aligned 0 times 147311 (0.38%) aligned exactly 1 time 44974 (0.12%) aligned >1 times 40.95% overall alignment rate Time searching: 00:08:34 Overall time: 00:08:34 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] 189870 / 13162464 = 0.0144 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 16:31:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.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 16:31:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:31:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:31:47: 1000000 INFO @ Wed, 22 Jul 2020 16:31:52: 2000000 INFO @ Wed, 22 Jul 2020 16:31:57: 3000000 INFO @ Wed, 22 Jul 2020 16:32:03: 4000000 INFO @ Wed, 22 Jul 2020 16:32:09: 5000000 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 16:32:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.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 16:32:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:32:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:32:14: 6000000 INFO @ Wed, 22 Jul 2020 16:32:19: 1000000 INFO @ Wed, 22 Jul 2020 16:32:21: 7000000 INFO @ Wed, 22 Jul 2020 16:32:26: 2000000 INFO @ Wed, 22 Jul 2020 16:32:27: 8000000 INFO @ Wed, 22 Jul 2020 16:32:33: 9000000 INFO @ Wed, 22 Jul 2020 16:32:33: 3000000 INFO @ Wed, 22 Jul 2020 16:32:39: 10000000 INFO @ Wed, 22 Jul 2020 16:32:39: 4000000 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 16:32:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.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 16:32:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:32:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:32:45: 11000000 INFO @ Wed, 22 Jul 2020 16:32:47: 5000000 INFO @ Wed, 22 Jul 2020 16:32:49: 1000000 INFO @ Wed, 22 Jul 2020 16:32:52: 12000000 INFO @ Wed, 22 Jul 2020 16:32:53: 6000000 INFO @ Wed, 22 Jul 2020 16:32:55: 2000000 INFO @ Wed, 22 Jul 2020 16:32:58: 13000000 INFO @ Wed, 22 Jul 2020 16:32:59: 7000000 INFO @ Wed, 22 Jul 2020 16:33:01: 3000000 INFO @ Wed, 22 Jul 2020 16:33:04: 14000000 INFO @ Wed, 22 Jul 2020 16:33:06: 8000000 INFO @ Wed, 22 Jul 2020 16:33:07: 4000000 INFO @ Wed, 22 Jul 2020 16:33:10: 15000000 INFO @ Wed, 22 Jul 2020 16:33:13: 9000000 INFO @ Wed, 22 Jul 2020 16:33:14: 5000000 INFO @ Wed, 22 Jul 2020 16:33:17: 16000000 INFO @ Wed, 22 Jul 2020 16:33:20: 10000000 INFO @ Wed, 22 Jul 2020 16:33:21: 6000000 INFO @ Wed, 22 Jul 2020 16:33:23: 17000000 INFO @ Wed, 22 Jul 2020 16:33:26: 11000000 INFO @ Wed, 22 Jul 2020 16:33:27: 7000000 INFO @ Wed, 22 Jul 2020 16:33:30: 18000000 INFO @ Wed, 22 Jul 2020 16:33:33: 12000000 INFO @ Wed, 22 Jul 2020 16:33:34: 8000000 INFO @ Wed, 22 Jul 2020 16:33:36: 19000000 INFO @ Wed, 22 Jul 2020 16:33:39: 13000000 INFO @ Wed, 22 Jul 2020 16:33:40: 9000000 INFO @ Wed, 22 Jul 2020 16:33:42: 20000000 INFO @ Wed, 22 Jul 2020 16:33:45: 14000000 INFO @ Wed, 22 Jul 2020 16:33:46: 10000000 INFO @ Wed, 22 Jul 2020 16:33:48: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:33:52: 15000000 INFO @ Wed, 22 Jul 2020 16:33:52: 11000000 INFO @ Wed, 22 Jul 2020 16:33:54: 22000000 INFO @ Wed, 22 Jul 2020 16:33:58: 16000000 INFO @ Wed, 22 Jul 2020 16:33:59: 12000000 INFO @ Wed, 22 Jul 2020 16:34:00: 23000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:34:04: 17000000 INFO @ Wed, 22 Jul 2020 16:34:05: 13000000 INFO @ Wed, 22 Jul 2020 16:34:06: 24000000 INFO @ Wed, 22 Jul 2020 16:34:10: 18000000 INFO @ Wed, 22 Jul 2020 16:34:11: 14000000 INFO @ Wed, 22 Jul 2020 16:34:12: 25000000 INFO @ Wed, 22 Jul 2020 16:34:16: 19000000 INFO @ Wed, 22 Jul 2020 16:34:17: 15000000 INFO @ Wed, 22 Jul 2020 16:34:18: 26000000 INFO @ Wed, 22 Jul 2020 16:34:19: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:34:19: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:34:19: #1 total tags in treatment: 12894443 INFO @ Wed, 22 Jul 2020 16:34:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:34:19: #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 16:34:20: #1 tags after filtering in treatment: 8072006 INFO @ Wed, 22 Jul 2020 16:34:20: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:34:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:34:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:34:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:34:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:34:20: 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 16:34:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.05_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/SRX8639586/SRX8639586.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:34:22: 20000000 INFO @ Wed, 22 Jul 2020 16:34:23: 16000000 INFO @ Wed, 22 Jul 2020 16:34:28: 21000000 INFO @ Wed, 22 Jul 2020 16:34:29: 17000000 INFO @ Wed, 22 Jul 2020 16:34:34: 22000000 INFO @ Wed, 22 Jul 2020 16:34:35: 18000000 INFO @ Wed, 22 Jul 2020 16:34:40: 23000000 INFO @ Wed, 22 Jul 2020 16:34:41: 19000000 INFO @ Wed, 22 Jul 2020 16:34:46: 24000000 INFO @ Wed, 22 Jul 2020 16:34:47: 20000000 INFO @ Wed, 22 Jul 2020 16:34:51: 25000000 INFO @ Wed, 22 Jul 2020 16:34:53: 21000000 INFO @ Wed, 22 Jul 2020 16:34:57: 26000000 INFO @ Wed, 22 Jul 2020 16:34:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:34:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:34:58: #1 total tags in treatment: 12894443 INFO @ Wed, 22 Jul 2020 16:34:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:34:58: #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 16:34:58: #1 tags after filtering in treatment: 8072006 INFO @ Wed, 22 Jul 2020 16:34:58: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:34:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:34:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:34:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:34:58: 22000000 INFO @ Wed, 22 Jul 2020 16:34:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:34:59: 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 16:34:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.10_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/SRX8639586/SRX8639586.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:35:04: 23000000 INFO @ Wed, 22 Jul 2020 16:35:09: 24000000 INFO @ Wed, 22 Jul 2020 16:35:14: 25000000 INFO @ Wed, 22 Jul 2020 16:35:19: 26000000 INFO @ Wed, 22 Jul 2020 16:35:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:35:20: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:35:20: #1 total tags in treatment: 12894443 INFO @ Wed, 22 Jul 2020 16:35:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:20: #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 16:35:20: #1 tags after filtering in treatment: 8072006 INFO @ Wed, 22 Jul 2020 16:35:20: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:35:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:21: 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 16:35:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.20_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/SRX8639586/SRX8639586.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639586/SRX8639586.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling