Job ID = 7117553 SRX = SRX8639541 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:40:21 prefetch.2.10.7: 1) Downloading 'SRR12116979'... 2020-07-22T06:40:21 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:46:19 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:46:19 prefetch.2.10.7: 1) 'SRR12116979' was downloaded successfully 2020-07-22T06:46:19 prefetch.2.10.7: 'SRR12116979' has 0 unresolved dependencies Read 25938787 spots for SRR12116979/SRR12116979.sra Written 25938787 spots for SRR12116979/SRR12116979.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: 00:12:36 25938787 reads; of these: 25938787 (100.00%) were paired; of these: 4341708 (16.74%) aligned concordantly 0 times 19166276 (73.89%) aligned concordantly exactly 1 time 2430803 (9.37%) aligned concordantly >1 times ---- 4341708 pairs aligned concordantly 0 times; of these: 140020 (3.22%) aligned discordantly 1 time ---- 4201688 pairs aligned 0 times concordantly or discordantly; of these: 8403376 mates make up the pairs; of these: 8097374 (96.36%) aligned 0 times 232400 (2.77%) aligned exactly 1 time 73602 (0.88%) aligned >1 times 84.39% overall alignment rate Time searching: 00:12:36 Overall time: 00:12:36 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] 459121 / 21716103 = 0.0211 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 16:09:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.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 16:09:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:09:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:09:55: 1000000 INFO @ Wed, 22 Jul 2020 16:09:59: 2000000 INFO @ Wed, 22 Jul 2020 16:10:04: 3000000 INFO @ Wed, 22 Jul 2020 16:10:08: 4000000 INFO @ Wed, 22 Jul 2020 16:10:13: 5000000 INFO @ Wed, 22 Jul 2020 16:10:17: 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 16:10:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.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 16:10:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:10:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:10:22: 7000000 INFO @ Wed, 22 Jul 2020 16:10:25: 1000000 INFO @ Wed, 22 Jul 2020 16:10:26: 8000000 INFO @ Wed, 22 Jul 2020 16:10:29: 2000000 INFO @ Wed, 22 Jul 2020 16:10:31: 9000000 INFO @ Wed, 22 Jul 2020 16:10:34: 3000000 INFO @ Wed, 22 Jul 2020 16:10:36: 10000000 INFO @ Wed, 22 Jul 2020 16:10:38: 4000000 INFO @ Wed, 22 Jul 2020 16:10:40: 11000000 INFO @ Wed, 22 Jul 2020 16:10:43: 5000000 INFO @ Wed, 22 Jul 2020 16:10:45: 12000000 INFO @ Wed, 22 Jul 2020 16:10:48: 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 16:10:49: 13000000 INFO @ Wed, 22 Jul 2020 16:10:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.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 16:10:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:10:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:10:52: 7000000 INFO @ Wed, 22 Jul 2020 16:10:54: 14000000 INFO @ Wed, 22 Jul 2020 16:10:55: 1000000 INFO @ Wed, 22 Jul 2020 16:10:57: 8000000 INFO @ Wed, 22 Jul 2020 16:10:58: 15000000 INFO @ Wed, 22 Jul 2020 16:11:00: 2000000 INFO @ Wed, 22 Jul 2020 16:11:01: 9000000 INFO @ Wed, 22 Jul 2020 16:11:03: 16000000 INFO @ Wed, 22 Jul 2020 16:11:04: 3000000 INFO @ Wed, 22 Jul 2020 16:11:06: 10000000 INFO @ Wed, 22 Jul 2020 16:11:08: 17000000 INFO @ Wed, 22 Jul 2020 16:11:09: 4000000 INFO @ Wed, 22 Jul 2020 16:11:11: 11000000 INFO @ Wed, 22 Jul 2020 16:11:12: 18000000 INFO @ Wed, 22 Jul 2020 16:11:14: 5000000 INFO @ Wed, 22 Jul 2020 16:11:15: 12000000 INFO @ Wed, 22 Jul 2020 16:11:17: 19000000 INFO @ Wed, 22 Jul 2020 16:11:19: 6000000 INFO @ Wed, 22 Jul 2020 16:11:20: 13000000 INFO @ Wed, 22 Jul 2020 16:11:22: 20000000 INFO @ Wed, 22 Jul 2020 16:11:23: 7000000 INFO @ Wed, 22 Jul 2020 16:11:24: 14000000 INFO @ Wed, 22 Jul 2020 16:11:26: 21000000 INFO @ Wed, 22 Jul 2020 16:11:28: 8000000 INFO @ Wed, 22 Jul 2020 16:11:29: 15000000 INFO @ Wed, 22 Jul 2020 16:11:31: 22000000 INFO @ Wed, 22 Jul 2020 16:11:33: 9000000 INFO @ Wed, 22 Jul 2020 16:11:33: 16000000 INFO @ Wed, 22 Jul 2020 16:11:35: 23000000 INFO @ Wed, 22 Jul 2020 16:11:37: 10000000 INFO @ Wed, 22 Jul 2020 16:11:38: 17000000 INFO @ Wed, 22 Jul 2020 16:11:40: 24000000 INFO @ Wed, 22 Jul 2020 16:11:42: 11000000 INFO @ Wed, 22 Jul 2020 16:11:43: 18000000 INFO @ Wed, 22 Jul 2020 16:11:44: 25000000 INFO @ Wed, 22 Jul 2020 16:11:46: 12000000 INFO @ Wed, 22 Jul 2020 16:11:47: 19000000 INFO @ Wed, 22 Jul 2020 16:11:49: 26000000 INFO @ Wed, 22 Jul 2020 16:11:51: 13000000 INFO @ Wed, 22 Jul 2020 16:11:52: 20000000 INFO @ Wed, 22 Jul 2020 16:11:54: 27000000 INFO @ Wed, 22 Jul 2020 16:11:55: 14000000 INFO @ Wed, 22 Jul 2020 16:11:56: 21000000 INFO @ Wed, 22 Jul 2020 16:11:58: 28000000 INFO @ Wed, 22 Jul 2020 16:12:00: 15000000 INFO @ Wed, 22 Jul 2020 16:12:01: 22000000 INFO @ Wed, 22 Jul 2020 16:12:03: 29000000 INFO @ Wed, 22 Jul 2020 16:12:05: 16000000 INFO @ Wed, 22 Jul 2020 16:12:05: 23000000 INFO @ Wed, 22 Jul 2020 16:12:07: 30000000 INFO @ Wed, 22 Jul 2020 16:12:09: 17000000 INFO @ Wed, 22 Jul 2020 16:12:10: 24000000 INFO @ Wed, 22 Jul 2020 16:12:12: 31000000 INFO @ Wed, 22 Jul 2020 16:12:14: 18000000 INFO @ Wed, 22 Jul 2020 16:12:14: 25000000 INFO @ Wed, 22 Jul 2020 16:12:16: 32000000 INFO @ Wed, 22 Jul 2020 16:12:19: 19000000 INFO @ Wed, 22 Jul 2020 16:12:19: 26000000 INFO @ Wed, 22 Jul 2020 16:12:21: 33000000 INFO @ Wed, 22 Jul 2020 16:12:23: 20000000 INFO @ Wed, 22 Jul 2020 16:12:23: 27000000 INFO @ Wed, 22 Jul 2020 16:12:25: 34000000 INFO @ Wed, 22 Jul 2020 16:12:28: 21000000 INFO @ Wed, 22 Jul 2020 16:12:28: 28000000 INFO @ Wed, 22 Jul 2020 16:12:30: 35000000 INFO @ Wed, 22 Jul 2020 16:12:32: 22000000 INFO @ Wed, 22 Jul 2020 16:12:33: 29000000 INFO @ Wed, 22 Jul 2020 16:12:34: 36000000 INFO @ Wed, 22 Jul 2020 16:12:37: 23000000 INFO @ Wed, 22 Jul 2020 16:12:37: 30000000 INFO @ Wed, 22 Jul 2020 16:12:39: 37000000 INFO @ Wed, 22 Jul 2020 16:12:42: 24000000 INFO @ Wed, 22 Jul 2020 16:12:42: 31000000 INFO @ Wed, 22 Jul 2020 16:12:43: 38000000 INFO @ Wed, 22 Jul 2020 16:12:46: 25000000 INFO @ Wed, 22 Jul 2020 16:12:46: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:12:48: 39000000 INFO @ Wed, 22 Jul 2020 16:12:51: 33000000 INFO @ Wed, 22 Jul 2020 16:12:51: 26000000 INFO @ Wed, 22 Jul 2020 16:12:52: 40000000 INFO @ Wed, 22 Jul 2020 16:12:56: 34000000 INFO @ Wed, 22 Jul 2020 16:12:56: 27000000 INFO @ Wed, 22 Jul 2020 16:12:57: 41000000 INFO @ Wed, 22 Jul 2020 16:13:00: 35000000 INFO @ Wed, 22 Jul 2020 16:13:00: 28000000 INFO @ Wed, 22 Jul 2020 16:13:01: 42000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:13:04: 36000000 INFO @ Wed, 22 Jul 2020 16:13:05: 29000000 INFO @ Wed, 22 Jul 2020 16:13:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:13:05: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:13:05: #1 total tags in treatment: 21138152 INFO @ Wed, 22 Jul 2020 16:13:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:13:05: #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 16:13:06: #1 tags after filtering in treatment: 13223501 INFO @ Wed, 22 Jul 2020 16:13:06: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:13:06: #1 finished! INFO @ Wed, 22 Jul 2020 16:13:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:13:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:13:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:13:06: 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 16:13:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.05_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/SRX8639541/SRX8639541.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:13:09: 37000000 INFO @ Wed, 22 Jul 2020 16:13:10: 30000000 INFO @ Wed, 22 Jul 2020 16:13:13: 38000000 INFO @ Wed, 22 Jul 2020 16:13:14: 31000000 INFO @ Wed, 22 Jul 2020 16:13:18: 39000000 INFO @ Wed, 22 Jul 2020 16:13:19: 32000000 INFO @ Wed, 22 Jul 2020 16:13:22: 40000000 INFO @ Wed, 22 Jul 2020 16:13:23: 33000000 INFO @ Wed, 22 Jul 2020 16:13:27: 41000000 INFO @ Wed, 22 Jul 2020 16:13:28: 34000000 INFO @ Wed, 22 Jul 2020 16:13:31: 42000000 INFO @ Wed, 22 Jul 2020 16:13:32: 35000000 INFO @ Wed, 22 Jul 2020 16:13:35: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:13:35: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:13:35: #1 total tags in treatment: 21138152 INFO @ Wed, 22 Jul 2020 16:13:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:13:35: #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 16:13:35: #1 tags after filtering in treatment: 13223501 INFO @ Wed, 22 Jul 2020 16:13:35: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:13:35: #1 finished! INFO @ Wed, 22 Jul 2020 16:13:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:13:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:13:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:13:36: 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 16:13:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.10_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/SRX8639541/SRX8639541.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:13:37: 36000000 INFO @ Wed, 22 Jul 2020 16:13:41: 37000000 INFO @ Wed, 22 Jul 2020 16:13:46: 38000000 INFO @ Wed, 22 Jul 2020 16:13:50: 39000000 INFO @ Wed, 22 Jul 2020 16:13:54: 40000000 INFO @ Wed, 22 Jul 2020 16:13:59: 41000000 INFO @ Wed, 22 Jul 2020 16:14:03: 42000000 INFO @ Wed, 22 Jul 2020 16:14:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:14:07: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:14:07: #1 total tags in treatment: 21138152 INFO @ Wed, 22 Jul 2020 16:14:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:14:07: #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 16:14:07: #1 tags after filtering in treatment: 13223501 INFO @ Wed, 22 Jul 2020 16:14:07: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:14:07: #1 finished! INFO @ Wed, 22 Jul 2020 16:14:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:14:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:14:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:14:08: 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 16:14:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.20_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/SRX8639541/SRX8639541.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639541/SRX8639541.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling