Job ID = 7115728 SRX = SRX8639458 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:12:09 prefetch.2.10.7: 1) Downloading 'SRR12117030'... 2020-07-22T06:12:09 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:13:58 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:13:58 prefetch.2.10.7: 1) 'SRR12117030' was downloaded successfully 2020-07-22T06:13:58 prefetch.2.10.7: 'SRR12117030' has 0 unresolved dependencies Read 22704808 spots for SRR12117030/SRR12117030.sra Written 22704808 spots for SRR12117030/SRR12117030.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: 00:10:34 22704808 reads; of these: 22704808 (100.00%) were paired; of these: 3704138 (16.31%) aligned concordantly 0 times 16771556 (73.87%) aligned concordantly exactly 1 time 2229114 (9.82%) aligned concordantly >1 times ---- 3704138 pairs aligned concordantly 0 times; of these: 719865 (19.43%) aligned discordantly 1 time ---- 2984273 pairs aligned 0 times concordantly or discordantly; of these: 5968546 mates make up the pairs; of these: 5515148 (92.40%) aligned 0 times 188560 (3.16%) aligned exactly 1 time 264838 (4.44%) aligned >1 times 87.85% overall alignment rate Time searching: 00:10:34 Overall time: 00:10:34 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 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] 307206 / 19658624 = 0.0156 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 15:34:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.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 15:34:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:34:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:24: 1000000 INFO @ Wed, 22 Jul 2020 15:34:29: 2000000 INFO @ Wed, 22 Jul 2020 15:34:33: 3000000 INFO @ Wed, 22 Jul 2020 15:34:38: 4000000 INFO @ Wed, 22 Jul 2020 15:34:42: 5000000 INFO @ Wed, 22 Jul 2020 15:34:46: 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 15:34:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.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 15:34:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:34:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:51: 7000000 INFO @ Wed, 22 Jul 2020 15:34:55: 1000000 INFO @ Wed, 22 Jul 2020 15:34:56: 8000000 INFO @ Wed, 22 Jul 2020 15:35:00: 9000000 INFO @ Wed, 22 Jul 2020 15:35:01: 2000000 INFO @ Wed, 22 Jul 2020 15:35:05: 10000000 INFO @ Wed, 22 Jul 2020 15:35:06: 3000000 INFO @ Wed, 22 Jul 2020 15:35:10: 11000000 INFO @ Wed, 22 Jul 2020 15:35:11: 4000000 INFO @ Wed, 22 Jul 2020 15:35:15: 12000000 INFO @ Wed, 22 Jul 2020 15:35:17: 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 15:35:20: 13000000 INFO @ Wed, 22 Jul 2020 15:35:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.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 15:35:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:22: 6000000 INFO @ Wed, 22 Jul 2020 15:35:24: 14000000 INFO @ Wed, 22 Jul 2020 15:35:25: 1000000 INFO @ Wed, 22 Jul 2020 15:35:28: 7000000 INFO @ Wed, 22 Jul 2020 15:35:29: 15000000 INFO @ Wed, 22 Jul 2020 15:35:30: 2000000 INFO @ Wed, 22 Jul 2020 15:35:33: 8000000 INFO @ Wed, 22 Jul 2020 15:35:34: 16000000 INFO @ Wed, 22 Jul 2020 15:35:35: 3000000 INFO @ Wed, 22 Jul 2020 15:35:39: 17000000 INFO @ Wed, 22 Jul 2020 15:35:39: 9000000 INFO @ Wed, 22 Jul 2020 15:35:39: 4000000 INFO @ Wed, 22 Jul 2020 15:35:44: 18000000 INFO @ Wed, 22 Jul 2020 15:35:44: 5000000 INFO @ Wed, 22 Jul 2020 15:35:44: 10000000 INFO @ Wed, 22 Jul 2020 15:35:49: 19000000 INFO @ Wed, 22 Jul 2020 15:35:49: 6000000 INFO @ Wed, 22 Jul 2020 15:35:50: 11000000 INFO @ Wed, 22 Jul 2020 15:35:53: 20000000 INFO @ Wed, 22 Jul 2020 15:35:54: 7000000 INFO @ Wed, 22 Jul 2020 15:35:55: 12000000 INFO @ Wed, 22 Jul 2020 15:35:58: 21000000 INFO @ Wed, 22 Jul 2020 15:35:59: 8000000 INFO @ Wed, 22 Jul 2020 15:36:01: 13000000 INFO @ Wed, 22 Jul 2020 15:36:03: 22000000 INFO @ Wed, 22 Jul 2020 15:36:04: 9000000 INFO @ Wed, 22 Jul 2020 15:36:06: 14000000 INFO @ Wed, 22 Jul 2020 15:36:08: 23000000 INFO @ Wed, 22 Jul 2020 15:36:08: 10000000 INFO @ Wed, 22 Jul 2020 15:36:11: 15000000 INFO @ Wed, 22 Jul 2020 15:36:13: 24000000 INFO @ Wed, 22 Jul 2020 15:36:13: 11000000 INFO @ Wed, 22 Jul 2020 15:36:16: 16000000 INFO @ Wed, 22 Jul 2020 15:36:18: 12000000 INFO @ Wed, 22 Jul 2020 15:36:18: 25000000 INFO @ Wed, 22 Jul 2020 15:36:22: 17000000 INFO @ Wed, 22 Jul 2020 15:36:23: 13000000 INFO @ Wed, 22 Jul 2020 15:36:23: 26000000 INFO @ Wed, 22 Jul 2020 15:36:27: 18000000 INFO @ Wed, 22 Jul 2020 15:36:27: 14000000 INFO @ Wed, 22 Jul 2020 15:36:28: 27000000 INFO @ Wed, 22 Jul 2020 15:36:32: 15000000 INFO @ Wed, 22 Jul 2020 15:36:32: 28000000 INFO @ Wed, 22 Jul 2020 15:36:33: 19000000 INFO @ Wed, 22 Jul 2020 15:36:37: 16000000 INFO @ Wed, 22 Jul 2020 15:36:37: 29000000 INFO @ Wed, 22 Jul 2020 15:36:38: 20000000 INFO @ Wed, 22 Jul 2020 15:36:42: 17000000 INFO @ Wed, 22 Jul 2020 15:36:42: 30000000 INFO @ Wed, 22 Jul 2020 15:36:44: 21000000 INFO @ Wed, 22 Jul 2020 15:36:46: 18000000 INFO @ Wed, 22 Jul 2020 15:36:47: 31000000 INFO @ Wed, 22 Jul 2020 15:36:50: 22000000 INFO @ Wed, 22 Jul 2020 15:36:51: 19000000 INFO @ Wed, 22 Jul 2020 15:36:51: 32000000 INFO @ Wed, 22 Jul 2020 15:36:55: 23000000 INFO @ Wed, 22 Jul 2020 15:36:56: 20000000 INFO @ Wed, 22 Jul 2020 15:36:56: 33000000 INFO @ Wed, 22 Jul 2020 15:37:01: 21000000 INFO @ Wed, 22 Jul 2020 15:37:01: 24000000 INFO @ Wed, 22 Jul 2020 15:37:01: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:37:06: 22000000 INFO @ Wed, 22 Jul 2020 15:37:06: 35000000 INFO @ Wed, 22 Jul 2020 15:37:06: 25000000 INFO @ Wed, 22 Jul 2020 15:37:11: 23000000 INFO @ Wed, 22 Jul 2020 15:37:11: 36000000 INFO @ Wed, 22 Jul 2020 15:37:12: 26000000 INFO @ Wed, 22 Jul 2020 15:37:15: 24000000 INFO @ Wed, 22 Jul 2020 15:37:16: 37000000 INFO @ Wed, 22 Jul 2020 15:37:17: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:37:20: 25000000 INFO @ Wed, 22 Jul 2020 15:37:20: 38000000 INFO @ Wed, 22 Jul 2020 15:37:22: 28000000 INFO @ Wed, 22 Jul 2020 15:37:25: 26000000 INFO @ Wed, 22 Jul 2020 15:37:25: 39000000 INFO @ Wed, 22 Jul 2020 15:37:27: 29000000 INFO @ Wed, 22 Jul 2020 15:37:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:27: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:27: #1 total tags in treatment: 18696880 INFO @ Wed, 22 Jul 2020 15:37:27: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:27: #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 15:37:27: #1 tags after filtering in treatment: 12151536 INFO @ Wed, 22 Jul 2020 15:37:27: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:37:27: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:27: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:28: 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 15:37:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.05_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/SRX8639458/SRX8639458.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:37:30: 27000000 INFO @ Wed, 22 Jul 2020 15:37:31: 30000000 INFO @ Wed, 22 Jul 2020 15:37:34: 28000000 INFO @ Wed, 22 Jul 2020 15:37:36: 31000000 INFO @ Wed, 22 Jul 2020 15:37:39: 29000000 INFO @ Wed, 22 Jul 2020 15:37:41: 32000000 INFO @ Wed, 22 Jul 2020 15:37:44: 30000000 INFO @ Wed, 22 Jul 2020 15:37:46: 33000000 INFO @ Wed, 22 Jul 2020 15:37:48: 31000000 INFO @ Wed, 22 Jul 2020 15:37:52: 34000000 INFO @ Wed, 22 Jul 2020 15:37:53: 32000000 INFO @ Wed, 22 Jul 2020 15:37:58: 35000000 INFO @ Wed, 22 Jul 2020 15:37:58: 33000000 INFO @ Wed, 22 Jul 2020 15:38:03: 34000000 INFO @ Wed, 22 Jul 2020 15:38:03: 36000000 INFO @ Wed, 22 Jul 2020 15:38:07: 35000000 INFO @ Wed, 22 Jul 2020 15:38:09: 37000000 INFO @ Wed, 22 Jul 2020 15:38:12: 36000000 INFO @ Wed, 22 Jul 2020 15:38:14: 38000000 INFO @ Wed, 22 Jul 2020 15:38:17: 37000000 INFO @ Wed, 22 Jul 2020 15:38:19: 39000000 INFO @ Wed, 22 Jul 2020 15:38:21: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:21: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:21: #1 total tags in treatment: 18696880 INFO @ Wed, 22 Jul 2020 15:38:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:21: #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 15:38:21: #1 tags after filtering in treatment: 12151536 INFO @ Wed, 22 Jul 2020 15:38:21: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:38:21: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:22: 38000000 INFO @ Wed, 22 Jul 2020 15:38:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:22: 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 15:38:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.10_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/SRX8639458/SRX8639458.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:26: 39000000 INFO @ Wed, 22 Jul 2020 15:38:28: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:28: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:28: #1 total tags in treatment: 18696880 INFO @ Wed, 22 Jul 2020 15:38:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:28: #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 15:38:28: #1 tags after filtering in treatment: 12151536 INFO @ Wed, 22 Jul 2020 15:38:28: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:38:28: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:29: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:29: 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 15:38:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.20_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/SRX8639458/SRX8639458.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639458/SRX8639458.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling