Job ID = 7117317 SRX = SRX8639499 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:37:22 prefetch.2.10.7: 1) Downloading 'SRR12117063'... 2020-07-22T06:37:22 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:41:04 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:41:04 prefetch.2.10.7: 1) 'SRR12117063' was downloaded successfully 2020-07-22T06:41:04 prefetch.2.10.7: 'SRR12117063' has 0 unresolved dependencies Read 25341065 spots for SRR12117063/SRR12117063.sra Written 25341065 spots for SRR12117063/SRR12117063.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: 00:12:25 25341065 reads; of these: 25341065 (100.00%) were paired; of these: 3523809 (13.91%) aligned concordantly 0 times 18977870 (74.89%) aligned concordantly exactly 1 time 2839386 (11.20%) aligned concordantly >1 times ---- 3523809 pairs aligned concordantly 0 times; of these: 346932 (9.85%) aligned discordantly 1 time ---- 3176877 pairs aligned 0 times concordantly or discordantly; of these: 6353754 mates make up the pairs; of these: 5938402 (93.46%) aligned 0 times 251059 (3.95%) aligned exactly 1 time 164293 (2.59%) aligned >1 times 88.28% overall alignment rate Time searching: 00:12:25 Overall time: 00:12:25 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 20 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] 543191 / 22020402 = 0.0247 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 16:04:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.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 16:04:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:04:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:04:17: 1000000 INFO @ Wed, 22 Jul 2020 16:04:22: 2000000 INFO @ Wed, 22 Jul 2020 16:04:27: 3000000 INFO @ Wed, 22 Jul 2020 16:04:32: 4000000 INFO @ Wed, 22 Jul 2020 16:04:37: 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 16:04:42: 6000000 INFO @ Wed, 22 Jul 2020 16:04:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.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 16:04:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:04:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:04:47: 7000000 INFO @ Wed, 22 Jul 2020 16:04:48: 1000000 INFO @ Wed, 22 Jul 2020 16:04:52: 8000000 INFO @ Wed, 22 Jul 2020 16:04:53: 2000000 INFO @ Wed, 22 Jul 2020 16:04:57: 9000000 INFO @ Wed, 22 Jul 2020 16:04:58: 3000000 INFO @ Wed, 22 Jul 2020 16:05:02: 10000000 INFO @ Wed, 22 Jul 2020 16:05:03: 4000000 INFO @ Wed, 22 Jul 2020 16:05:08: 11000000 INFO @ Wed, 22 Jul 2020 16:05:08: 5000000 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 16:05:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.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 16:05:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:13: 12000000 INFO @ Wed, 22 Jul 2020 16:05:13: 6000000 INFO @ Wed, 22 Jul 2020 16:05:17: 1000000 INFO @ Wed, 22 Jul 2020 16:05:18: 13000000 INFO @ Wed, 22 Jul 2020 16:05:18: 7000000 INFO @ Wed, 22 Jul 2020 16:05:22: 2000000 INFO @ Wed, 22 Jul 2020 16:05:23: 14000000 INFO @ Wed, 22 Jul 2020 16:05:24: 8000000 INFO @ Wed, 22 Jul 2020 16:05:27: 3000000 INFO @ Wed, 22 Jul 2020 16:05:28: 15000000 INFO @ Wed, 22 Jul 2020 16:05:29: 9000000 INFO @ Wed, 22 Jul 2020 16:05:31: 4000000 INFO @ Wed, 22 Jul 2020 16:05:33: 16000000 INFO @ Wed, 22 Jul 2020 16:05:34: 10000000 INFO @ Wed, 22 Jul 2020 16:05:36: 5000000 INFO @ Wed, 22 Jul 2020 16:05:38: 17000000 INFO @ Wed, 22 Jul 2020 16:05:40: 11000000 INFO @ Wed, 22 Jul 2020 16:05:40: 6000000 INFO @ Wed, 22 Jul 2020 16:05:43: 18000000 INFO @ Wed, 22 Jul 2020 16:05:45: 12000000 INFO @ Wed, 22 Jul 2020 16:05:45: 7000000 INFO @ Wed, 22 Jul 2020 16:05:48: 19000000 INFO @ Wed, 22 Jul 2020 16:05:50: 8000000 INFO @ Wed, 22 Jul 2020 16:05:50: 13000000 INFO @ Wed, 22 Jul 2020 16:05:53: 20000000 INFO @ Wed, 22 Jul 2020 16:05:54: 9000000 INFO @ Wed, 22 Jul 2020 16:05:55: 14000000 INFO @ Wed, 22 Jul 2020 16:05:58: 21000000 INFO @ Wed, 22 Jul 2020 16:05:59: 10000000 INFO @ Wed, 22 Jul 2020 16:06:01: 15000000 INFO @ Wed, 22 Jul 2020 16:06:03: 22000000 INFO @ Wed, 22 Jul 2020 16:06:04: 11000000 INFO @ Wed, 22 Jul 2020 16:06:06: 16000000 INFO @ Wed, 22 Jul 2020 16:06:08: 23000000 INFO @ Wed, 22 Jul 2020 16:06:08: 12000000 INFO @ Wed, 22 Jul 2020 16:06:11: 17000000 INFO @ Wed, 22 Jul 2020 16:06:13: 13000000 INFO @ Wed, 22 Jul 2020 16:06:13: 24000000 INFO @ Wed, 22 Jul 2020 16:06:16: 18000000 INFO @ Wed, 22 Jul 2020 16:06:18: 14000000 INFO @ Wed, 22 Jul 2020 16:06:18: 25000000 INFO @ Wed, 22 Jul 2020 16:06:21: 19000000 INFO @ Wed, 22 Jul 2020 16:06:22: 15000000 INFO @ Wed, 22 Jul 2020 16:06:23: 26000000 INFO @ Wed, 22 Jul 2020 16:06:27: 20000000 INFO @ Wed, 22 Jul 2020 16:06:27: 16000000 INFO @ Wed, 22 Jul 2020 16:06:28: 27000000 INFO @ Wed, 22 Jul 2020 16:06:31: 17000000 INFO @ Wed, 22 Jul 2020 16:06:32: 21000000 INFO @ Wed, 22 Jul 2020 16:06:33: 28000000 INFO @ Wed, 22 Jul 2020 16:06:36: 18000000 INFO @ Wed, 22 Jul 2020 16:06:37: 22000000 INFO @ Wed, 22 Jul 2020 16:06:38: 29000000 INFO @ Wed, 22 Jul 2020 16:06:41: 19000000 INFO @ Wed, 22 Jul 2020 16:06:42: 23000000 INFO @ Wed, 22 Jul 2020 16:06:43: 30000000 INFO @ Wed, 22 Jul 2020 16:06:45: 20000000 INFO @ Wed, 22 Jul 2020 16:06:47: 24000000 INFO @ Wed, 22 Jul 2020 16:06:48: 31000000 INFO @ Wed, 22 Jul 2020 16:06:50: 21000000 INFO @ Wed, 22 Jul 2020 16:06:52: 25000000 INFO @ Wed, 22 Jul 2020 16:06:53: 32000000 INFO @ Wed, 22 Jul 2020 16:06:54: 22000000 INFO @ Wed, 22 Jul 2020 16:06:57: 26000000 INFO @ Wed, 22 Jul 2020 16:06:58: 33000000 INFO @ Wed, 22 Jul 2020 16:06:59: 23000000 INFO @ Wed, 22 Jul 2020 16:07:02: 27000000 INFO @ Wed, 22 Jul 2020 16:07:03: 34000000 INFO @ Wed, 22 Jul 2020 16:07:04: 24000000 INFO @ Wed, 22 Jul 2020 16:07:07: 28000000 INFO @ Wed, 22 Jul 2020 16:07:08: 35000000 INFO @ Wed, 22 Jul 2020 16:07:08: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:07:12: 29000000 INFO @ Wed, 22 Jul 2020 16:07:13: 26000000 INFO @ Wed, 22 Jul 2020 16:07:13: 36000000 INFO @ Wed, 22 Jul 2020 16:07:17: 27000000 INFO @ Wed, 22 Jul 2020 16:07:18: 30000000 INFO @ Wed, 22 Jul 2020 16:07:18: 37000000 INFO @ Wed, 22 Jul 2020 16:07:22: 28000000 INFO @ Wed, 22 Jul 2020 16:07:23: 31000000 INFO @ Wed, 22 Jul 2020 16:07:23: 38000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:07:27: 29000000 INFO @ Wed, 22 Jul 2020 16:07:28: 32000000 INFO @ Wed, 22 Jul 2020 16:07:28: 39000000 INFO @ Wed, 22 Jul 2020 16:07:31: 30000000 INFO @ Wed, 22 Jul 2020 16:07:33: 33000000 INFO @ Wed, 22 Jul 2020 16:07:34: 40000000 INFO @ Wed, 22 Jul 2020 16:07:36: 31000000 INFO @ Wed, 22 Jul 2020 16:07:38: 34000000 INFO @ Wed, 22 Jul 2020 16:07:39: 41000000 INFO @ Wed, 22 Jul 2020 16:07:40: 32000000 INFO @ Wed, 22 Jul 2020 16:07:43: 35000000 INFO @ Wed, 22 Jul 2020 16:07:44: 42000000 INFO @ Wed, 22 Jul 2020 16:07:45: 33000000 INFO @ Wed, 22 Jul 2020 16:07:48: 36000000 INFO @ Wed, 22 Jul 2020 16:07:49: 43000000 INFO @ Wed, 22 Jul 2020 16:07:50: 34000000 INFO @ Wed, 22 Jul 2020 16:07:53: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:07:53: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:07:53: #1 total tags in treatment: 21274591 INFO @ Wed, 22 Jul 2020 16:07:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:07:53: #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 16:07:53: #1 tags after filtering in treatment: 13078408 INFO @ Wed, 22 Jul 2020 16:07:53: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:07:53: #1 finished! INFO @ Wed, 22 Jul 2020 16:07:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:07:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:07:53: 37000000 INFO @ Wed, 22 Jul 2020 16:07:54: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:07:54: 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 16:07:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.05_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/SRX8639499/SRX8639499.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:07:54: 35000000 INFO @ Wed, 22 Jul 2020 16:07:59: 38000000 INFO @ Wed, 22 Jul 2020 16:07:59: 36000000 INFO @ Wed, 22 Jul 2020 16:08:03: 37000000 INFO @ Wed, 22 Jul 2020 16:08:04: 39000000 INFO @ Wed, 22 Jul 2020 16:08:08: 38000000 INFO @ Wed, 22 Jul 2020 16:08:09: 40000000 INFO @ Wed, 22 Jul 2020 16:08:13: 39000000 INFO @ Wed, 22 Jul 2020 16:08:14: 41000000 INFO @ Wed, 22 Jul 2020 16:08:18: 40000000 INFO @ Wed, 22 Jul 2020 16:08:20: 42000000 INFO @ Wed, 22 Jul 2020 16:08:22: 41000000 INFO @ Wed, 22 Jul 2020 16:08:25: 43000000 INFO @ Wed, 22 Jul 2020 16:08:27: 42000000 INFO @ Wed, 22 Jul 2020 16:08:29: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:29: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:29: #1 total tags in treatment: 21274591 INFO @ Wed, 22 Jul 2020 16:08:29: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:29: #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 16:08:29: #1 tags after filtering in treatment: 13078408 INFO @ Wed, 22 Jul 2020 16:08:29: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:08:29: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:29: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:30: 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 16:08:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.10_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/SRX8639499/SRX8639499.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:08:32: 43000000 INFO @ Wed, 22 Jul 2020 16:08:35: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:35: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:35: #1 total tags in treatment: 21274591 INFO @ Wed, 22 Jul 2020 16:08:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:35: #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 16:08:35: #1 tags after filtering in treatment: 13078408 INFO @ Wed, 22 Jul 2020 16:08:35: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:08:35: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:36: 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 16:08:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.20_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/SRX8639499/SRX8639499.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639499/SRX8639499.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling