Job ID = 7117239 SRX = SRX8639498 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:36:51 prefetch.2.10.7: 1) Downloading 'SRR12117062'... 2020-07-22T06:36:51 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:40:48 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:40:48 prefetch.2.10.7: 1) 'SRR12117062' was downloaded successfully 2020-07-22T06:40:48 prefetch.2.10.7: 'SRR12117062' has 0 unresolved dependencies Read 26324036 spots for SRR12117062/SRR12117062.sra Written 26324036 spots for SRR12117062/SRR12117062.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: 00:14:03 26324036 reads; of these: 26324036 (100.00%) were paired; of these: 3442966 (13.08%) aligned concordantly 0 times 19884632 (75.54%) aligned concordantly exactly 1 time 2996438 (11.38%) aligned concordantly >1 times ---- 3442966 pairs aligned concordantly 0 times; of these: 305236 (8.87%) aligned discordantly 1 time ---- 3137730 pairs aligned 0 times concordantly or discordantly; of these: 6275460 mates make up the pairs; of these: 5888276 (93.83%) aligned 0 times 232843 (3.71%) aligned exactly 1 time 154341 (2.46%) aligned >1 times 88.82% overall alignment rate Time searching: 00:14:03 Overall time: 00:14:03 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] 619895 / 23052544 = 0.0269 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 16:05:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.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 16:05:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:54: 1000000 INFO @ Wed, 22 Jul 2020 16:05:58: 2000000 INFO @ Wed, 22 Jul 2020 16:06:03: 3000000 INFO @ Wed, 22 Jul 2020 16:06:07: 4000000 INFO @ Wed, 22 Jul 2020 16:06:12: 5000000 INFO @ Wed, 22 Jul 2020 16:06:16: 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 16:06:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.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 16:06:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:21: 7000000 INFO @ Wed, 22 Jul 2020 16:06:24: 1000000 INFO @ Wed, 22 Jul 2020 16:06:26: 8000000 INFO @ Wed, 22 Jul 2020 16:06:29: 2000000 INFO @ Wed, 22 Jul 2020 16:06:31: 9000000 INFO @ Wed, 22 Jul 2020 16:06:35: 3000000 INFO @ Wed, 22 Jul 2020 16:06:36: 10000000 INFO @ Wed, 22 Jul 2020 16:06:40: 4000000 INFO @ Wed, 22 Jul 2020 16:06:41: 11000000 INFO @ Wed, 22 Jul 2020 16:06:45: 5000000 INFO @ Wed, 22 Jul 2020 16:06:46: 12000000 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 16:06:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.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 16:06:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:50: 6000000 INFO @ Wed, 22 Jul 2020 16:06:51: 13000000 INFO @ Wed, 22 Jul 2020 16:06:54: 1000000 INFO @ Wed, 22 Jul 2020 16:06:55: 7000000 INFO @ Wed, 22 Jul 2020 16:06:56: 14000000 INFO @ Wed, 22 Jul 2020 16:06:59: 2000000 INFO @ Wed, 22 Jul 2020 16:07:00: 8000000 INFO @ Wed, 22 Jul 2020 16:07:02: 15000000 INFO @ Wed, 22 Jul 2020 16:07:05: 3000000 INFO @ Wed, 22 Jul 2020 16:07:05: 9000000 INFO @ Wed, 22 Jul 2020 16:07:07: 16000000 INFO @ Wed, 22 Jul 2020 16:07:10: 10000000 INFO @ Wed, 22 Jul 2020 16:07:10: 4000000 INFO @ Wed, 22 Jul 2020 16:07:12: 17000000 INFO @ Wed, 22 Jul 2020 16:07:15: 11000000 INFO @ Wed, 22 Jul 2020 16:07:15: 5000000 INFO @ Wed, 22 Jul 2020 16:07:17: 18000000 INFO @ Wed, 22 Jul 2020 16:07:20: 12000000 INFO @ Wed, 22 Jul 2020 16:07:20: 6000000 INFO @ Wed, 22 Jul 2020 16:07:22: 19000000 INFO @ Wed, 22 Jul 2020 16:07:25: 13000000 INFO @ Wed, 22 Jul 2020 16:07:25: 7000000 INFO @ Wed, 22 Jul 2020 16:07:27: 20000000 INFO @ Wed, 22 Jul 2020 16:07:30: 14000000 INFO @ Wed, 22 Jul 2020 16:07:30: 8000000 INFO @ Wed, 22 Jul 2020 16:07:32: 21000000 INFO @ Wed, 22 Jul 2020 16:07:35: 15000000 INFO @ Wed, 22 Jul 2020 16:07:35: 9000000 INFO @ Wed, 22 Jul 2020 16:07:37: 22000000 INFO @ Wed, 22 Jul 2020 16:07:40: 16000000 INFO @ Wed, 22 Jul 2020 16:07:41: 10000000 INFO @ Wed, 22 Jul 2020 16:07:42: 23000000 INFO @ Wed, 22 Jul 2020 16:07:46: 17000000 INFO @ Wed, 22 Jul 2020 16:07:46: 11000000 INFO @ Wed, 22 Jul 2020 16:07:47: 24000000 INFO @ Wed, 22 Jul 2020 16:07:51: 18000000 INFO @ Wed, 22 Jul 2020 16:07:51: 12000000 INFO @ Wed, 22 Jul 2020 16:07:52: 25000000 INFO @ Wed, 22 Jul 2020 16:07:55: 19000000 INFO @ Wed, 22 Jul 2020 16:07:56: 13000000 INFO @ Wed, 22 Jul 2020 16:07:57: 26000000 INFO @ Wed, 22 Jul 2020 16:08:01: 20000000 INFO @ Wed, 22 Jul 2020 16:08:01: 14000000 INFO @ Wed, 22 Jul 2020 16:08:02: 27000000 INFO @ Wed, 22 Jul 2020 16:08:05: 21000000 INFO @ Wed, 22 Jul 2020 16:08:06: 15000000 INFO @ Wed, 22 Jul 2020 16:08:07: 28000000 INFO @ Wed, 22 Jul 2020 16:08:10: 22000000 INFO @ Wed, 22 Jul 2020 16:08:12: 16000000 INFO @ Wed, 22 Jul 2020 16:08:12: 29000000 INFO @ Wed, 22 Jul 2020 16:08:15: 23000000 INFO @ Wed, 22 Jul 2020 16:08:17: 17000000 INFO @ Wed, 22 Jul 2020 16:08:17: 30000000 INFO @ Wed, 22 Jul 2020 16:08:20: 24000000 INFO @ Wed, 22 Jul 2020 16:08:22: 18000000 INFO @ Wed, 22 Jul 2020 16:08:22: 31000000 INFO @ Wed, 22 Jul 2020 16:08:25: 25000000 INFO @ Wed, 22 Jul 2020 16:08:27: 19000000 INFO @ Wed, 22 Jul 2020 16:08:27: 32000000 INFO @ Wed, 22 Jul 2020 16:08:30: 26000000 INFO @ Wed, 22 Jul 2020 16:08:32: 20000000 INFO @ Wed, 22 Jul 2020 16:08:32: 33000000 INFO @ Wed, 22 Jul 2020 16:08:35: 27000000 INFO @ Wed, 22 Jul 2020 16:08:37: 21000000 INFO @ Wed, 22 Jul 2020 16:08:37: 34000000 INFO @ Wed, 22 Jul 2020 16:08:40: 28000000 INFO @ Wed, 22 Jul 2020 16:08:42: 22000000 INFO @ Wed, 22 Jul 2020 16:08:42: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:08:45: 29000000 INFO @ Wed, 22 Jul 2020 16:08:47: 23000000 INFO @ Wed, 22 Jul 2020 16:08:47: 36000000 INFO @ Wed, 22 Jul 2020 16:08:50: 30000000 INFO @ Wed, 22 Jul 2020 16:08:52: 24000000 INFO @ Wed, 22 Jul 2020 16:08:52: 37000000 INFO @ Wed, 22 Jul 2020 16:08:55: 31000000 INFO @ Wed, 22 Jul 2020 16:08:56: 25000000 INFO @ Wed, 22 Jul 2020 16:08:56: 38000000 INFO @ Wed, 22 Jul 2020 16:09:00: 32000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:09:01: 26000000 INFO @ Wed, 22 Jul 2020 16:09:01: 39000000 INFO @ Wed, 22 Jul 2020 16:09:05: 33000000 INFO @ Wed, 22 Jul 2020 16:09:06: 27000000 INFO @ Wed, 22 Jul 2020 16:09:06: 40000000 INFO @ Wed, 22 Jul 2020 16:09:10: 34000000 INFO @ Wed, 22 Jul 2020 16:09:11: 28000000 INFO @ Wed, 22 Jul 2020 16:09:11: 41000000 INFO @ Wed, 22 Jul 2020 16:09:14: 35000000 INFO @ Wed, 22 Jul 2020 16:09:16: 29000000 INFO @ Wed, 22 Jul 2020 16:09:16: 42000000 INFO @ Wed, 22 Jul 2020 16:09:19: 36000000 INFO @ Wed, 22 Jul 2020 16:09:21: 30000000 INFO @ Wed, 22 Jul 2020 16:09:21: 43000000 INFO @ Wed, 22 Jul 2020 16:09:24: 37000000 INFO @ Wed, 22 Jul 2020 16:09:26: 31000000 INFO @ Wed, 22 Jul 2020 16:09:26: 44000000 INFO @ Wed, 22 Jul 2020 16:09:29: 38000000 INFO @ Wed, 22 Jul 2020 16:09:31: 32000000 INFO @ Wed, 22 Jul 2020 16:09:31: 45000000 INFO @ Wed, 22 Jul 2020 16:09:34: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:34: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:34: #1 total tags in treatment: 22261669 INFO @ Wed, 22 Jul 2020 16:09:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:34: #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 16:09:34: 39000000 INFO @ Wed, 22 Jul 2020 16:09:34: #1 tags after filtering in treatment: 13520951 INFO @ Wed, 22 Jul 2020 16:09:34: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:09:34: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:35: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:35: 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 16:09:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.05_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/SRX8639498/SRX8639498.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:36: 33000000 INFO @ Wed, 22 Jul 2020 16:09:39: 40000000 INFO @ Wed, 22 Jul 2020 16:09:40: 34000000 INFO @ Wed, 22 Jul 2020 16:09:44: 41000000 INFO @ Wed, 22 Jul 2020 16:09:45: 35000000 INFO @ Wed, 22 Jul 2020 16:09:48: 42000000 INFO @ Wed, 22 Jul 2020 16:09:50: 36000000 INFO @ Wed, 22 Jul 2020 16:09:53: 43000000 INFO @ Wed, 22 Jul 2020 16:09:55: 37000000 INFO @ Wed, 22 Jul 2020 16:09:58: 44000000 INFO @ Wed, 22 Jul 2020 16:10:00: 38000000 INFO @ Wed, 22 Jul 2020 16:10:03: 45000000 INFO @ Wed, 22 Jul 2020 16:10:05: 39000000 INFO @ Wed, 22 Jul 2020 16:10:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:06: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:06: #1 total tags in treatment: 22261669 INFO @ Wed, 22 Jul 2020 16:10:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:06: #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 16:10:06: #1 tags after filtering in treatment: 13520951 INFO @ Wed, 22 Jul 2020 16:10:06: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:10:06: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:07: 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 16:10:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.10_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/SRX8639498/SRX8639498.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:09: 40000000 INFO @ Wed, 22 Jul 2020 16:10:14: 41000000 INFO @ Wed, 22 Jul 2020 16:10:19: 42000000 INFO @ Wed, 22 Jul 2020 16:10:23: 43000000 INFO @ Wed, 22 Jul 2020 16:10:28: 44000000 INFO @ Wed, 22 Jul 2020 16:10:33: 45000000 INFO @ Wed, 22 Jul 2020 16:10:35: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:35: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:35: #1 total tags in treatment: 22261669 INFO @ Wed, 22 Jul 2020 16:10:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:35: #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 16:10:36: #1 tags after filtering in treatment: 13520951 INFO @ Wed, 22 Jul 2020 16:10:36: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:10:36: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:37: 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 16:10:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.20_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/SRX8639498/SRX8639498.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639498/SRX8639498.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling