Job ID = 7117364 SRX = SRX8639502 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:37:55 prefetch.2.10.7: 1) Downloading 'SRR12117066'... 2020-07-22T06:37:55 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:44:49 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:44:49 prefetch.2.10.7: 1) 'SRR12117066' was downloaded successfully 2020-07-22T06:44:50 prefetch.2.10.7: 'SRR12117066' has 0 unresolved dependencies Read 31543445 spots for SRR12117066/SRR12117066.sra Written 31543445 spots for SRR12117066/SRR12117066.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: 00:18:16 31543445 reads; of these: 31543445 (100.00%) were paired; of these: 4451716 (14.11%) aligned concordantly 0 times 23573564 (74.73%) aligned concordantly exactly 1 time 3518165 (11.15%) aligned concordantly >1 times ---- 4451716 pairs aligned concordantly 0 times; of these: 363443 (8.16%) aligned discordantly 1 time ---- 4088273 pairs aligned 0 times concordantly or discordantly; of these: 8176546 mates make up the pairs; of these: 7622768 (93.23%) aligned 0 times 358282 (4.38%) aligned exactly 1 time 195496 (2.39%) aligned >1 times 87.92% overall alignment rate Time searching: 00:18:16 Overall time: 00:18:16 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 24 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] 811123 / 27299138 = 0.0297 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 16:17:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.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 16:17:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:17:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:17:54: 1000000 INFO @ Wed, 22 Jul 2020 16:17:59: 2000000 INFO @ Wed, 22 Jul 2020 16:18:03: 3000000 INFO @ Wed, 22 Jul 2020 16:18:08: 4000000 INFO @ Wed, 22 Jul 2020 16:18:12: 5000000 INFO @ Wed, 22 Jul 2020 16:18:17: 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 16:18:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.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 16:18:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:18:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:18:21: 7000000 INFO @ Wed, 22 Jul 2020 16:18:24: 1000000 INFO @ Wed, 22 Jul 2020 16:18:26: 8000000 INFO @ Wed, 22 Jul 2020 16:18:29: 2000000 INFO @ Wed, 22 Jul 2020 16:18:31: 9000000 INFO @ Wed, 22 Jul 2020 16:18:34: 3000000 INFO @ Wed, 22 Jul 2020 16:18:35: 10000000 INFO @ Wed, 22 Jul 2020 16:18:38: 4000000 INFO @ Wed, 22 Jul 2020 16:18:40: 11000000 INFO @ Wed, 22 Jul 2020 16:18:43: 5000000 INFO @ Wed, 22 Jul 2020 16:18:44: 12000000 INFO @ Wed, 22 Jul 2020 16:18:47: 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 16:18:49: 13000000 INFO @ Wed, 22 Jul 2020 16:18:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.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 16:18:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:18:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:18:52: 7000000 INFO @ Wed, 22 Jul 2020 16:18:54: 14000000 INFO @ Wed, 22 Jul 2020 16:18:55: 1000000 INFO @ Wed, 22 Jul 2020 16:18:57: 8000000 INFO @ Wed, 22 Jul 2020 16:18:58: 15000000 INFO @ Wed, 22 Jul 2020 16:18:59: 2000000 INFO @ Wed, 22 Jul 2020 16:19:01: 9000000 INFO @ Wed, 22 Jul 2020 16:19:03: 16000000 INFO @ Wed, 22 Jul 2020 16:19:04: 3000000 INFO @ Wed, 22 Jul 2020 16:19:06: 10000000 INFO @ Wed, 22 Jul 2020 16:19:07: 17000000 INFO @ Wed, 22 Jul 2020 16:19:08: 4000000 INFO @ Wed, 22 Jul 2020 16:19:10: 11000000 INFO @ Wed, 22 Jul 2020 16:19:12: 18000000 INFO @ Wed, 22 Jul 2020 16:19:13: 5000000 INFO @ Wed, 22 Jul 2020 16:19:15: 12000000 INFO @ Wed, 22 Jul 2020 16:19:17: 19000000 INFO @ Wed, 22 Jul 2020 16:19:18: 6000000 INFO @ Wed, 22 Jul 2020 16:19:20: 13000000 INFO @ Wed, 22 Jul 2020 16:19:21: 20000000 INFO @ Wed, 22 Jul 2020 16:19:22: 7000000 INFO @ Wed, 22 Jul 2020 16:19:24: 14000000 INFO @ Wed, 22 Jul 2020 16:19:26: 21000000 INFO @ Wed, 22 Jul 2020 16:19:27: 8000000 INFO @ Wed, 22 Jul 2020 16:19:29: 15000000 INFO @ Wed, 22 Jul 2020 16:19:30: 22000000 INFO @ Wed, 22 Jul 2020 16:19:32: 9000000 INFO @ Wed, 22 Jul 2020 16:19:33: 16000000 INFO @ Wed, 22 Jul 2020 16:19:35: 23000000 INFO @ Wed, 22 Jul 2020 16:19:36: 10000000 INFO @ Wed, 22 Jul 2020 16:19:38: 17000000 INFO @ Wed, 22 Jul 2020 16:19:40: 24000000 INFO @ Wed, 22 Jul 2020 16:19:41: 11000000 INFO @ Wed, 22 Jul 2020 16:19:43: 18000000 INFO @ Wed, 22 Jul 2020 16:19:44: 25000000 INFO @ Wed, 22 Jul 2020 16:19:46: 12000000 INFO @ Wed, 22 Jul 2020 16:19:47: 19000000 INFO @ Wed, 22 Jul 2020 16:19:49: 26000000 INFO @ Wed, 22 Jul 2020 16:19:50: 13000000 INFO @ Wed, 22 Jul 2020 16:19:52: 20000000 INFO @ Wed, 22 Jul 2020 16:19:54: 27000000 INFO @ Wed, 22 Jul 2020 16:19:55: 14000000 INFO @ Wed, 22 Jul 2020 16:19:57: 21000000 INFO @ Wed, 22 Jul 2020 16:19:58: 28000000 INFO @ Wed, 22 Jul 2020 16:20:00: 15000000 INFO @ Wed, 22 Jul 2020 16:20:01: 22000000 INFO @ Wed, 22 Jul 2020 16:20:03: 29000000 INFO @ Wed, 22 Jul 2020 16:20:04: 16000000 INFO @ Wed, 22 Jul 2020 16:20:06: 23000000 INFO @ Wed, 22 Jul 2020 16:20:08: 30000000 INFO @ Wed, 22 Jul 2020 16:20:09: 17000000 INFO @ Wed, 22 Jul 2020 16:20:10: 24000000 INFO @ Wed, 22 Jul 2020 16:20:12: 31000000 INFO @ Wed, 22 Jul 2020 16:20:14: 18000000 INFO @ Wed, 22 Jul 2020 16:20:15: 25000000 INFO @ Wed, 22 Jul 2020 16:20:17: 32000000 INFO @ Wed, 22 Jul 2020 16:20:18: 19000000 INFO @ Wed, 22 Jul 2020 16:20:20: 26000000 INFO @ Wed, 22 Jul 2020 16:20:22: 33000000 INFO @ Wed, 22 Jul 2020 16:20:23: 20000000 INFO @ Wed, 22 Jul 2020 16:20:24: 27000000 INFO @ Wed, 22 Jul 2020 16:20:26: 34000000 INFO @ Wed, 22 Jul 2020 16:20:28: 21000000 INFO @ Wed, 22 Jul 2020 16:20:29: 28000000 INFO @ Wed, 22 Jul 2020 16:20:31: 35000000 INFO @ Wed, 22 Jul 2020 16:20:32: 22000000 INFO @ Wed, 22 Jul 2020 16:20:33: 29000000 INFO @ Wed, 22 Jul 2020 16:20:36: 36000000 INFO @ Wed, 22 Jul 2020 16:20:37: 23000000 INFO @ Wed, 22 Jul 2020 16:20:38: 30000000 INFO @ Wed, 22 Jul 2020 16:20:40: 37000000 INFO @ Wed, 22 Jul 2020 16:20:42: 24000000 INFO @ Wed, 22 Jul 2020 16:20:43: 31000000 INFO @ Wed, 22 Jul 2020 16:20:45: 38000000 INFO @ Wed, 22 Jul 2020 16:20:46: 25000000 INFO @ Wed, 22 Jul 2020 16:20:47: 32000000 INFO @ Wed, 22 Jul 2020 16:20:50: 39000000 INFO @ Wed, 22 Jul 2020 16:20:51: 26000000 INFO @ Wed, 22 Jul 2020 16:20:52: 33000000 INFO @ Wed, 22 Jul 2020 16:20:54: 40000000 INFO @ Wed, 22 Jul 2020 16:20:56: 27000000 INFO @ Wed, 22 Jul 2020 16:20:57: 34000000 INFO @ Wed, 22 Jul 2020 16:20:59: 41000000 INFO @ Wed, 22 Jul 2020 16:21:00: 28000000 INFO @ Wed, 22 Jul 2020 16:21:01: 35000000 INFO @ Wed, 22 Jul 2020 16:21:04: 42000000 INFO @ Wed, 22 Jul 2020 16:21:05: 29000000 INFO @ Wed, 22 Jul 2020 16:21:06: 36000000 INFO @ Wed, 22 Jul 2020 16:21:08: 43000000 INFO @ Wed, 22 Jul 2020 16:21:10: 30000000 INFO @ Wed, 22 Jul 2020 16:21:10: 37000000 INFO @ Wed, 22 Jul 2020 16:21:13: 44000000 INFO @ Wed, 22 Jul 2020 16:21:14: 31000000 INFO @ Wed, 22 Jul 2020 16:21:15: 38000000 INFO @ Wed, 22 Jul 2020 16:21:18: 45000000 INFO @ Wed, 22 Jul 2020 16:21:19: 32000000 INFO @ Wed, 22 Jul 2020 16:21:20: 39000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:21:22: 46000000 INFO @ Wed, 22 Jul 2020 16:21:24: 33000000 INFO @ Wed, 22 Jul 2020 16:21:24: 40000000 INFO @ Wed, 22 Jul 2020 16:21:27: 47000000 INFO @ Wed, 22 Jul 2020 16:21:28: 34000000 INFO @ Wed, 22 Jul 2020 16:21:29: 41000000 INFO @ Wed, 22 Jul 2020 16:21:32: 48000000 INFO @ Wed, 22 Jul 2020 16:21:33: 35000000 INFO @ Wed, 22 Jul 2020 16:21:34: 42000000 INFO @ Wed, 22 Jul 2020 16:21:37: 49000000 INFO @ Wed, 22 Jul 2020 16:21:38: 36000000 INFO @ Wed, 22 Jul 2020 16:21:38: 43000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:21:41: 50000000 INFO @ Wed, 22 Jul 2020 16:21:42: 37000000 INFO @ Wed, 22 Jul 2020 16:21:43: 44000000 INFO @ Wed, 22 Jul 2020 16:21:46: 51000000 INFO @ Wed, 22 Jul 2020 16:21:47: 38000000 INFO @ Wed, 22 Jul 2020 16:21:48: 45000000 INFO @ Wed, 22 Jul 2020 16:21:51: 52000000 INFO @ Wed, 22 Jul 2020 16:21:52: 39000000 INFO @ Wed, 22 Jul 2020 16:21:53: 46000000 INFO @ Wed, 22 Jul 2020 16:21:56: 53000000 INFO @ Wed, 22 Jul 2020 16:21:57: 40000000 INFO @ Wed, 22 Jul 2020 16:21:57: 47000000 INFO @ Wed, 22 Jul 2020 16:22:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:22:00: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:22:00: #1 total tags in treatment: 26281950 INFO @ Wed, 22 Jul 2020 16:22:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:22:00: #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 16:22:01: #1 tags after filtering in treatment: 14956035 INFO @ Wed, 22 Jul 2020 16:22:01: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 16:22:01: #1 finished! INFO @ Wed, 22 Jul 2020 16:22:01: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:22:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:22:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:22:01: 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 16:22:01: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 16:22:01: 41000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.05_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/SRX8639502/SRX8639502.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:22:02: 48000000 INFO @ Wed, 22 Jul 2020 16:22:06: 42000000 INFO @ Wed, 22 Jul 2020 16:22:07: 49000000 INFO @ Wed, 22 Jul 2020 16:22:11: 43000000 INFO @ Wed, 22 Jul 2020 16:22:11: 50000000 INFO @ Wed, 22 Jul 2020 16:22:16: 44000000 INFO @ Wed, 22 Jul 2020 16:22:16: 51000000 INFO @ Wed, 22 Jul 2020 16:22:20: 45000000 INFO @ Wed, 22 Jul 2020 16:22:21: 52000000 INFO @ Wed, 22 Jul 2020 16:22:25: 46000000 INFO @ Wed, 22 Jul 2020 16:22:25: 53000000 INFO @ Wed, 22 Jul 2020 16:22:30: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:22:30: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:22:30: #1 total tags in treatment: 26281950 INFO @ Wed, 22 Jul 2020 16:22:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:22:30: #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 16:22:30: 47000000 INFO @ Wed, 22 Jul 2020 16:22:30: #1 tags after filtering in treatment: 14956035 INFO @ Wed, 22 Jul 2020 16:22:30: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 16:22:30: #1 finished! INFO @ Wed, 22 Jul 2020 16:22:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:22:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:22:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:22:31: 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 16:22:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.10_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/SRX8639502/SRX8639502.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:22:34: 48000000 INFO @ Wed, 22 Jul 2020 16:22:39: 49000000 INFO @ Wed, 22 Jul 2020 16:22:44: 50000000 INFO @ Wed, 22 Jul 2020 16:22:48: 51000000 INFO @ Wed, 22 Jul 2020 16:22:53: 52000000 INFO @ Wed, 22 Jul 2020 16:22:58: 53000000 INFO @ Wed, 22 Jul 2020 16:23:02: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:23:02: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:23:02: #1 total tags in treatment: 26281950 INFO @ Wed, 22 Jul 2020 16:23:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:23:02: #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 16:23:03: #1 tags after filtering in treatment: 14956035 INFO @ Wed, 22 Jul 2020 16:23:03: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 16:23:03: #1 finished! INFO @ Wed, 22 Jul 2020 16:23:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:23:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:23:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:23:04: 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 16:23:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.20_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/SRX8639502/SRX8639502.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639502/SRX8639502.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling