Job ID = 7112706 SRX = SRX8357689 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:22:18 prefetch.2.10.7: 1) Downloading 'SRR11806277'... 2020-07-22T05:22:18 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:24:07 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:24:07 prefetch.2.10.7: 1) 'SRR11806277' was downloaded successfully 2020-07-22T05:24:07 prefetch.2.10.7: 'SRR11806277' has 0 unresolved dependencies Read 28605074 spots for SRR11806277/SRR11806277.sra Written 28605074 spots for SRR11806277/SRR11806277.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: 00:15:49 28605074 reads; of these: 28605074 (100.00%) were paired; of these: 1477582 (5.17%) aligned concordantly 0 times 23221512 (81.18%) aligned concordantly exactly 1 time 3905980 (13.65%) aligned concordantly >1 times ---- 1477582 pairs aligned concordantly 0 times; of these: 260344 (17.62%) aligned discordantly 1 time ---- 1217238 pairs aligned 0 times concordantly or discordantly; of these: 2434476 mates make up the pairs; of these: 1790912 (73.56%) aligned 0 times 218439 (8.97%) aligned exactly 1 time 425125 (17.46%) aligned >1 times 96.87% overall alignment rate Time searching: 00:15:49 Overall time: 00:15:49 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] 9898102 / 27315633 = 0.3624 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 14:50:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.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 14:50:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:50:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:51:04: 1000000 INFO @ Wed, 22 Jul 2020 14:51:10: 2000000 INFO @ Wed, 22 Jul 2020 14:51:15: 3000000 INFO @ Wed, 22 Jul 2020 14:51:20: 4000000 INFO @ Wed, 22 Jul 2020 14:51:25: 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 14:51:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.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 14:51:29: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:51:29: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:51:31: 6000000 INFO @ Wed, 22 Jul 2020 14:51:35: 1000000 INFO @ Wed, 22 Jul 2020 14:51:36: 7000000 INFO @ Wed, 22 Jul 2020 14:51:41: 2000000 INFO @ Wed, 22 Jul 2020 14:51:42: 8000000 INFO @ Wed, 22 Jul 2020 14:51:46: 3000000 INFO @ Wed, 22 Jul 2020 14:51:48: 9000000 INFO @ Wed, 22 Jul 2020 14:51:52: 4000000 INFO @ Wed, 22 Jul 2020 14:51:53: 10000000 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 14:51:58: 5000000 INFO @ Wed, 22 Jul 2020 14:51:59: 11000000 INFO @ Wed, 22 Jul 2020 14:51:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.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 14:51:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:51:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:52:04: 6000000 INFO @ Wed, 22 Jul 2020 14:52:05: 12000000 INFO @ Wed, 22 Jul 2020 14:52:05: 1000000 INFO @ Wed, 22 Jul 2020 14:52:10: 7000000 INFO @ Wed, 22 Jul 2020 14:52:11: 13000000 INFO @ Wed, 22 Jul 2020 14:52:11: 2000000 INFO @ Wed, 22 Jul 2020 14:52:16: 8000000 INFO @ Wed, 22 Jul 2020 14:52:16: 14000000 INFO @ Wed, 22 Jul 2020 14:52:17: 3000000 INFO @ Wed, 22 Jul 2020 14:52:22: 9000000 INFO @ Wed, 22 Jul 2020 14:52:22: 15000000 INFO @ Wed, 22 Jul 2020 14:52:23: 4000000 INFO @ Wed, 22 Jul 2020 14:52:28: 10000000 INFO @ Wed, 22 Jul 2020 14:52:28: 16000000 INFO @ Wed, 22 Jul 2020 14:52:29: 5000000 INFO @ Wed, 22 Jul 2020 14:52:33: 11000000 INFO @ Wed, 22 Jul 2020 14:52:35: 17000000 INFO @ Wed, 22 Jul 2020 14:52:35: 6000000 INFO @ Wed, 22 Jul 2020 14:52:39: 12000000 INFO @ Wed, 22 Jul 2020 14:52:40: 18000000 INFO @ Wed, 22 Jul 2020 14:52:41: 7000000 INFO @ Wed, 22 Jul 2020 14:52:45: 13000000 INFO @ Wed, 22 Jul 2020 14:52:46: 19000000 INFO @ Wed, 22 Jul 2020 14:52:47: 8000000 INFO @ Wed, 22 Jul 2020 14:52:50: 14000000 INFO @ Wed, 22 Jul 2020 14:52:52: 20000000 INFO @ Wed, 22 Jul 2020 14:52:53: 9000000 INFO @ Wed, 22 Jul 2020 14:52:56: 15000000 INFO @ Wed, 22 Jul 2020 14:52:58: 21000000 INFO @ Wed, 22 Jul 2020 14:52:58: 10000000 INFO @ Wed, 22 Jul 2020 14:53:02: 16000000 INFO @ Wed, 22 Jul 2020 14:53:04: 11000000 INFO @ Wed, 22 Jul 2020 14:53:04: 22000000 INFO @ Wed, 22 Jul 2020 14:53:08: 17000000 INFO @ Wed, 22 Jul 2020 14:53:10: 12000000 INFO @ Wed, 22 Jul 2020 14:53:10: 23000000 INFO @ Wed, 22 Jul 2020 14:53:14: 18000000 INFO @ Wed, 22 Jul 2020 14:53:15: 13000000 INFO @ Wed, 22 Jul 2020 14:53:16: 24000000 INFO @ Wed, 22 Jul 2020 14:53:20: 19000000 INFO @ Wed, 22 Jul 2020 14:53:21: 14000000 INFO @ Wed, 22 Jul 2020 14:53:22: 25000000 INFO @ Wed, 22 Jul 2020 14:53:26: 20000000 INFO @ Wed, 22 Jul 2020 14:53:27: 15000000 INFO @ Wed, 22 Jul 2020 14:53:28: 26000000 INFO @ Wed, 22 Jul 2020 14:53:32: 21000000 INFO @ Wed, 22 Jul 2020 14:53:33: 16000000 INFO @ Wed, 22 Jul 2020 14:53:33: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:53:38: 22000000 INFO @ Wed, 22 Jul 2020 14:53:39: 28000000 INFO @ Wed, 22 Jul 2020 14:53:39: 17000000 INFO @ Wed, 22 Jul 2020 14:53:44: 23000000 INFO @ Wed, 22 Jul 2020 14:53:45: 29000000 INFO @ Wed, 22 Jul 2020 14:53:45: 18000000 INFO @ Wed, 22 Jul 2020 14:53:50: 24000000 INFO @ Wed, 22 Jul 2020 14:53:50: 30000000 INFO @ Wed, 22 Jul 2020 14:53:51: 19000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:53:55: 25000000 INFO @ Wed, 22 Jul 2020 14:53:56: 31000000 INFO @ Wed, 22 Jul 2020 14:53:57: 20000000 INFO @ Wed, 22 Jul 2020 14:54:01: 26000000 INFO @ Wed, 22 Jul 2020 14:54:01: 32000000 INFO @ Wed, 22 Jul 2020 14:54:03: 21000000 INFO @ Wed, 22 Jul 2020 14:54:07: 27000000 INFO @ Wed, 22 Jul 2020 14:54:07: 33000000 INFO @ Wed, 22 Jul 2020 14:54:08: 22000000 INFO @ Wed, 22 Jul 2020 14:54:13: 28000000 INFO @ Wed, 22 Jul 2020 14:54:13: 34000000 INFO @ Wed, 22 Jul 2020 14:54:14: 23000000 INFO @ Wed, 22 Jul 2020 14:54:19: 29000000 INFO @ Wed, 22 Jul 2020 14:54:19: 35000000 INFO @ Wed, 22 Jul 2020 14:54:20: 24000000 INFO @ Wed, 22 Jul 2020 14:54:22: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:54:22: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:54:22: #1 total tags in treatment: 17323549 INFO @ Wed, 22 Jul 2020 14:54:22: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:54:22: #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 14:54:23: #1 tags after filtering in treatment: 6920009 INFO @ Wed, 22 Jul 2020 14:54:23: #1 Redundant rate of treatment: 0.60 INFO @ Wed, 22 Jul 2020 14:54:23: #1 finished! INFO @ Wed, 22 Jul 2020 14:54:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:54:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:54:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:54:23: 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 14:54:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.05_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/SRX8357689/SRX8357689.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:54:24: 30000000 INFO @ Wed, 22 Jul 2020 14:54:26: 25000000 INFO @ Wed, 22 Jul 2020 14:54:30: 31000000 INFO @ Wed, 22 Jul 2020 14:54:32: 26000000 INFO @ Wed, 22 Jul 2020 14:54:35: 32000000 INFO @ Wed, 22 Jul 2020 14:54:37: 27000000 INFO @ Wed, 22 Jul 2020 14:54:41: 33000000 INFO @ Wed, 22 Jul 2020 14:54:43: 28000000 INFO @ Wed, 22 Jul 2020 14:54:47: 34000000 INFO @ Wed, 22 Jul 2020 14:54:49: 29000000 INFO @ Wed, 22 Jul 2020 14:54:52: 35000000 INFO @ Wed, 22 Jul 2020 14:54:54: 30000000 INFO @ Wed, 22 Jul 2020 14:54:56: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:54:56: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:54:56: #1 total tags in treatment: 17323549 INFO @ Wed, 22 Jul 2020 14:54:56: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:54:56: #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 14:54:56: #1 tags after filtering in treatment: 6920009 INFO @ Wed, 22 Jul 2020 14:54:56: #1 Redundant rate of treatment: 0.60 INFO @ Wed, 22 Jul 2020 14:54:56: #1 finished! INFO @ Wed, 22 Jul 2020 14:54:56: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:54:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:54:56: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:54:56: 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 14:54:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.10_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/SRX8357689/SRX8357689.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:54:59: 31000000 INFO @ Wed, 22 Jul 2020 14:55:04: 32000000 INFO @ Wed, 22 Jul 2020 14:55:09: 33000000 INFO @ Wed, 22 Jul 2020 14:55:14: 34000000 INFO @ Wed, 22 Jul 2020 14:55:19: 35000000 INFO @ Wed, 22 Jul 2020 14:55:23: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:55:23: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:55:23: #1 total tags in treatment: 17323549 INFO @ Wed, 22 Jul 2020 14:55:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:55:23: #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 14:55:23: #1 tags after filtering in treatment: 6920009 INFO @ Wed, 22 Jul 2020 14:55:23: #1 Redundant rate of treatment: 0.60 INFO @ Wed, 22 Jul 2020 14:55:23: #1 finished! INFO @ Wed, 22 Jul 2020 14:55:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:55:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:55:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:55:23: 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 14:55:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.20_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/SRX8357689/SRX8357689.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357689/SRX8357689.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling