Job ID = 7118032 SRX = SRX8639567 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:08:53 prefetch.2.10.7: 1) Downloading 'SRR12117005'... 2020-07-22T07:08:53 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:11:19 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:11:19 prefetch.2.10.7: 1) 'SRR12117005' was downloaded successfully 2020-07-22T07:11:19 prefetch.2.10.7: 'SRR12117005' has 0 unresolved dependencies Read 25022161 spots for SRR12117005/SRR12117005.sra Written 25022161 spots for SRR12117005/SRR12117005.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 25022161 reads; of these: 25022161 (100.00%) were paired; of these: 12285591 (49.10%) aligned concordantly 0 times 11578318 (46.27%) aligned concordantly exactly 1 time 1158252 (4.63%) aligned concordantly >1 times ---- 12285591 pairs aligned concordantly 0 times; of these: 140641 (1.14%) aligned discordantly 1 time ---- 12144950 pairs aligned 0 times concordantly or discordantly; of these: 24289900 mates make up the pairs; of these: 23963203 (98.66%) aligned 0 times 269189 (1.11%) aligned exactly 1 time 57508 (0.24%) aligned >1 times 52.12% 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 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] 149309 / 12856387 = 0.0116 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 16:28:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.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 16:28:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:28:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:29:05: 1000000 INFO @ Wed, 22 Jul 2020 16:29:12: 2000000 INFO @ Wed, 22 Jul 2020 16:29:18: 3000000 INFO @ Wed, 22 Jul 2020 16:29:24: 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 16:29:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.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 16:29:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:29:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:29:31: 5000000 INFO @ Wed, 22 Jul 2020 16:29:35: 1000000 INFO @ Wed, 22 Jul 2020 16:29:37: 6000000 INFO @ Wed, 22 Jul 2020 16:29:41: 2000000 INFO @ Wed, 22 Jul 2020 16:29:44: 7000000 INFO @ Wed, 22 Jul 2020 16:29:48: 3000000 INFO @ Wed, 22 Jul 2020 16:29:51: 8000000 INFO @ Wed, 22 Jul 2020 16:29:54: 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 16:29:58: 9000000 INFO @ Wed, 22 Jul 2020 16:29:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.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 16:29:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:29:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:30:01: 5000000 INFO @ Wed, 22 Jul 2020 16:30:04: 10000000 INFO @ Wed, 22 Jul 2020 16:30:05: 1000000 INFO @ Wed, 22 Jul 2020 16:30:08: 6000000 INFO @ Wed, 22 Jul 2020 16:30:11: 11000000 INFO @ Wed, 22 Jul 2020 16:30:11: 2000000 INFO @ Wed, 22 Jul 2020 16:30:14: 7000000 INFO @ Wed, 22 Jul 2020 16:30:18: 3000000 INFO @ Wed, 22 Jul 2020 16:30:18: 12000000 INFO @ Wed, 22 Jul 2020 16:30:21: 8000000 INFO @ Wed, 22 Jul 2020 16:30:25: 4000000 INFO @ Wed, 22 Jul 2020 16:30:25: 13000000 INFO @ Wed, 22 Jul 2020 16:30:28: 9000000 INFO @ Wed, 22 Jul 2020 16:30:31: 5000000 INFO @ Wed, 22 Jul 2020 16:30:32: 14000000 INFO @ Wed, 22 Jul 2020 16:30:34: 10000000 INFO @ Wed, 22 Jul 2020 16:30:38: 6000000 INFO @ Wed, 22 Jul 2020 16:30:39: 15000000 INFO @ Wed, 22 Jul 2020 16:30:41: 11000000 INFO @ Wed, 22 Jul 2020 16:30:45: 7000000 INFO @ Wed, 22 Jul 2020 16:30:46: 16000000 INFO @ Wed, 22 Jul 2020 16:30:48: 12000000 INFO @ Wed, 22 Jul 2020 16:30:51: 8000000 INFO @ Wed, 22 Jul 2020 16:30:53: 17000000 INFO @ Wed, 22 Jul 2020 16:30:55: 13000000 INFO @ Wed, 22 Jul 2020 16:30:58: 9000000 INFO @ Wed, 22 Jul 2020 16:31:00: 18000000 INFO @ Wed, 22 Jul 2020 16:31:02: 14000000 INFO @ Wed, 22 Jul 2020 16:31:04: 10000000 INFO @ Wed, 22 Jul 2020 16:31:07: 19000000 INFO @ Wed, 22 Jul 2020 16:31:09: 15000000 INFO @ Wed, 22 Jul 2020 16:31:11: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:31:14: 20000000 INFO @ Wed, 22 Jul 2020 16:31:15: 16000000 INFO @ Wed, 22 Jul 2020 16:31:18: 12000000 INFO @ Wed, 22 Jul 2020 16:31:21: 21000000 INFO @ Wed, 22 Jul 2020 16:31:22: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:31:25: 13000000 INFO @ Wed, 22 Jul 2020 16:31:28: 22000000 INFO @ Wed, 22 Jul 2020 16:31:29: 18000000 INFO @ Wed, 22 Jul 2020 16:31:32: 14000000 INFO @ Wed, 22 Jul 2020 16:31:35: 23000000 INFO @ Wed, 22 Jul 2020 16:31:36: 19000000 INFO @ Wed, 22 Jul 2020 16:31:38: 15000000 INFO @ Wed, 22 Jul 2020 16:31:42: 24000000 INFO @ Wed, 22 Jul 2020 16:31:43: 20000000 INFO @ Wed, 22 Jul 2020 16:31:45: 16000000 INFO @ Wed, 22 Jul 2020 16:31:49: 25000000 INFO @ Wed, 22 Jul 2020 16:31:49: 21000000 INFO @ Wed, 22 Jul 2020 16:31:52: 17000000 INFO @ Wed, 22 Jul 2020 16:31:54: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:31:54: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:31:54: #1 total tags in treatment: 12587466 INFO @ Wed, 22 Jul 2020 16:31:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:31:54: #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 16:31:54: #1 tags after filtering in treatment: 7958809 INFO @ Wed, 22 Jul 2020 16:31:54: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:31:54: #1 finished! INFO @ Wed, 22 Jul 2020 16:31:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:31:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:31:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:31:55: 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 16:31:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.05_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/SRX8639567/SRX8639567.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:31:56: 22000000 INFO @ Wed, 22 Jul 2020 16:31:58: 18000000 INFO @ Wed, 22 Jul 2020 16:32:03: 23000000 INFO @ Wed, 22 Jul 2020 16:32:05: 19000000 INFO @ Wed, 22 Jul 2020 16:32:09: 24000000 INFO @ Wed, 22 Jul 2020 16:32:11: 20000000 INFO @ Wed, 22 Jul 2020 16:32:16: 25000000 INFO @ Wed, 22 Jul 2020 16:32:18: 21000000 INFO @ Wed, 22 Jul 2020 16:32:21: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:32:21: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:32:21: #1 total tags in treatment: 12587466 INFO @ Wed, 22 Jul 2020 16:32:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:32:21: #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 16:32:21: #1 tags after filtering in treatment: 7958809 INFO @ Wed, 22 Jul 2020 16:32:21: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:32:21: #1 finished! INFO @ Wed, 22 Jul 2020 16:32:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:32:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:32:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:32:22: 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 16:32:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.10_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/SRX8639567/SRX8639567.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:32:24: 22000000 INFO @ Wed, 22 Jul 2020 16:32:30: 23000000 INFO @ Wed, 22 Jul 2020 16:32:36: 24000000 INFO @ Wed, 22 Jul 2020 16:32:43: 25000000 INFO @ Wed, 22 Jul 2020 16:32:47: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:32:47: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:32:47: #1 total tags in treatment: 12587466 INFO @ Wed, 22 Jul 2020 16:32:47: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:32:47: #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 16:32:47: #1 tags after filtering in treatment: 7958809 INFO @ Wed, 22 Jul 2020 16:32:47: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:32:47: #1 finished! INFO @ Wed, 22 Jul 2020 16:32:47: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:32:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:32:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:32:48: 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 16:32:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.20_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/SRX8639567/SRX8639567.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639567/SRX8639567.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling