Job ID = 7112840 SRX = SRX8357694 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:24:28 prefetch.2.10.7: 1) Downloading 'SRR11806282'... 2020-07-22T05:24:28 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:26:36 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:26:36 prefetch.2.10.7: 1) 'SRR11806282' was downloaded successfully 2020-07-22T05:26:36 prefetch.2.10.7: 'SRR11806282' has 0 unresolved dependencies Read 36379043 spots for SRR11806282/SRR11806282.sra Written 36379043 spots for SRR11806282/SRR11806282.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: 00:19:45 36379043 reads; of these: 36379043 (100.00%) were paired; of these: 3447237 (9.48%) aligned concordantly 0 times 29212783 (80.30%) aligned concordantly exactly 1 time 3719023 (10.22%) aligned concordantly >1 times ---- 3447237 pairs aligned concordantly 0 times; of these: 534824 (15.51%) aligned discordantly 1 time ---- 2912413 pairs aligned 0 times concordantly or discordantly; of these: 5824826 mates make up the pairs; of these: 4677186 (80.30%) aligned 0 times 286868 (4.92%) aligned exactly 1 time 860772 (14.78%) aligned >1 times 93.57% overall alignment rate Time searching: 00:19:45 Overall time: 00:19:45 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 28 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] 12231453 / 33332885 = 0.3669 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 14:59:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.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 14:59:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:59:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:59:41: 1000000 INFO @ Wed, 22 Jul 2020 14:59:46: 2000000 INFO @ Wed, 22 Jul 2020 14:59:51: 3000000 INFO @ Wed, 22 Jul 2020 14:59:56: 4000000 INFO @ Wed, 22 Jul 2020 15:00:01: 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 15:00:06: 6000000 INFO @ Wed, 22 Jul 2020 15:00:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.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 15:00:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:00:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:00:11: 1000000 INFO @ Wed, 22 Jul 2020 15:00:11: 7000000 INFO @ Wed, 22 Jul 2020 15:00:16: 2000000 INFO @ Wed, 22 Jul 2020 15:00:16: 8000000 INFO @ Wed, 22 Jul 2020 15:00:20: 3000000 INFO @ Wed, 22 Jul 2020 15:00:20: 9000000 INFO @ Wed, 22 Jul 2020 15:00:25: 4000000 INFO @ Wed, 22 Jul 2020 15:00:25: 10000000 INFO @ Wed, 22 Jul 2020 15:00:29: 5000000 INFO @ Wed, 22 Jul 2020 15:00:29: 11000000 INFO @ Wed, 22 Jul 2020 15:00:34: 12000000 INFO @ Wed, 22 Jul 2020 15:00:34: 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 15:00:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.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 15:00:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:00:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:00:38: 13000000 INFO @ Wed, 22 Jul 2020 15:00:38: 7000000 INFO @ Wed, 22 Jul 2020 15:00:41: 1000000 INFO @ Wed, 22 Jul 2020 15:00:42: 14000000 INFO @ Wed, 22 Jul 2020 15:00:43: 8000000 INFO @ Wed, 22 Jul 2020 15:00:46: 2000000 INFO @ Wed, 22 Jul 2020 15:00:47: 15000000 INFO @ Wed, 22 Jul 2020 15:00:47: 9000000 INFO @ Wed, 22 Jul 2020 15:00:50: 3000000 INFO @ Wed, 22 Jul 2020 15:00:51: 16000000 INFO @ Wed, 22 Jul 2020 15:00:52: 10000000 INFO @ Wed, 22 Jul 2020 15:00:55: 4000000 INFO @ Wed, 22 Jul 2020 15:00:55: 17000000 INFO @ Wed, 22 Jul 2020 15:00:56: 11000000 INFO @ Wed, 22 Jul 2020 15:00:59: 5000000 INFO @ Wed, 22 Jul 2020 15:01:00: 18000000 INFO @ Wed, 22 Jul 2020 15:01:01: 12000000 INFO @ Wed, 22 Jul 2020 15:01:04: 6000000 INFO @ Wed, 22 Jul 2020 15:01:04: 19000000 INFO @ Wed, 22 Jul 2020 15:01:05: 13000000 INFO @ Wed, 22 Jul 2020 15:01:08: 7000000 INFO @ Wed, 22 Jul 2020 15:01:08: 20000000 INFO @ Wed, 22 Jul 2020 15:01:09: 14000000 INFO @ Wed, 22 Jul 2020 15:01:13: 21000000 INFO @ Wed, 22 Jul 2020 15:01:13: 8000000 INFO @ Wed, 22 Jul 2020 15:01:14: 15000000 INFO @ Wed, 22 Jul 2020 15:01:17: 22000000 INFO @ Wed, 22 Jul 2020 15:01:17: 9000000 INFO @ Wed, 22 Jul 2020 15:01:18: 16000000 INFO @ Wed, 22 Jul 2020 15:01:22: 23000000 INFO @ Wed, 22 Jul 2020 15:01:22: 10000000 INFO @ Wed, 22 Jul 2020 15:01:22: 17000000 INFO @ Wed, 22 Jul 2020 15:01:26: 24000000 INFO @ Wed, 22 Jul 2020 15:01:26: 11000000 INFO @ Wed, 22 Jul 2020 15:01:27: 18000000 INFO @ Wed, 22 Jul 2020 15:01:30: 12000000 INFO @ Wed, 22 Jul 2020 15:01:31: 25000000 INFO @ Wed, 22 Jul 2020 15:01:31: 19000000 INFO @ Wed, 22 Jul 2020 15:01:35: 13000000 INFO @ Wed, 22 Jul 2020 15:01:35: 26000000 INFO @ Wed, 22 Jul 2020 15:01:36: 20000000 INFO @ Wed, 22 Jul 2020 15:01:39: 14000000 INFO @ Wed, 22 Jul 2020 15:01:40: 27000000 INFO @ Wed, 22 Jul 2020 15:01:40: 21000000 INFO @ Wed, 22 Jul 2020 15:01:43: 15000000 INFO @ Wed, 22 Jul 2020 15:01:44: 28000000 INFO @ Wed, 22 Jul 2020 15:01:44: 22000000 INFO @ Wed, 22 Jul 2020 15:01:48: 16000000 INFO @ Wed, 22 Jul 2020 15:01:49: 29000000 INFO @ Wed, 22 Jul 2020 15:01:49: 23000000 INFO @ Wed, 22 Jul 2020 15:01:52: 17000000 INFO @ Wed, 22 Jul 2020 15:01:53: 30000000 INFO @ Wed, 22 Jul 2020 15:01:53: 24000000 INFO @ Wed, 22 Jul 2020 15:01:56: 18000000 INFO @ Wed, 22 Jul 2020 15:01:58: 31000000 INFO @ Wed, 22 Jul 2020 15:01:58: 25000000 INFO @ Wed, 22 Jul 2020 15:02:01: 19000000 INFO @ Wed, 22 Jul 2020 15:02:02: 32000000 INFO @ Wed, 22 Jul 2020 15:02:02: 26000000 INFO @ Wed, 22 Jul 2020 15:02:05: 20000000 INFO @ Wed, 22 Jul 2020 15:02:06: 33000000 INFO @ Wed, 22 Jul 2020 15:02:06: 27000000 INFO @ Wed, 22 Jul 2020 15:02:09: 21000000 INFO @ Wed, 22 Jul 2020 15:02:11: 28000000 INFO @ Wed, 22 Jul 2020 15:02:11: 34000000 INFO @ Wed, 22 Jul 2020 15:02:14: 22000000 INFO @ Wed, 22 Jul 2020 15:02:15: 29000000 INFO @ Wed, 22 Jul 2020 15:02:15: 35000000 INFO @ Wed, 22 Jul 2020 15:02:18: 23000000 INFO @ Wed, 22 Jul 2020 15:02:20: 30000000 INFO @ Wed, 22 Jul 2020 15:02:20: 36000000 INFO @ Wed, 22 Jul 2020 15:02:23: 24000000 INFO @ Wed, 22 Jul 2020 15:02:24: 31000000 INFO @ Wed, 22 Jul 2020 15:02:24: 37000000 INFO @ Wed, 22 Jul 2020 15:02:27: 25000000 INFO @ Wed, 22 Jul 2020 15:02:29: 32000000 INFO @ Wed, 22 Jul 2020 15:02:29: 38000000 INFO @ Wed, 22 Jul 2020 15:02:32: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:02:33: 39000000 INFO @ Wed, 22 Jul 2020 15:02:33: 33000000 INFO @ Wed, 22 Jul 2020 15:02:36: 27000000 INFO @ Wed, 22 Jul 2020 15:02:37: 40000000 INFO @ Wed, 22 Jul 2020 15:02:37: 34000000 INFO @ Wed, 22 Jul 2020 15:02:41: 28000000 INFO @ Wed, 22 Jul 2020 15:02:42: 35000000 INFO @ Wed, 22 Jul 2020 15:02:42: 41000000 INFO @ Wed, 22 Jul 2020 15:02:45: 29000000 INFO @ Wed, 22 Jul 2020 15:02:46: 36000000 INFO @ Wed, 22 Jul 2020 15:02:46: 42000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:02:49: 30000000 INFO @ Wed, 22 Jul 2020 15:02:50: 37000000 INFO @ Wed, 22 Jul 2020 15:02:51: 43000000 INFO @ Wed, 22 Jul 2020 15:02:54: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:02:54: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:02:54: #1 total tags in treatment: 20956157 INFO @ Wed, 22 Jul 2020 15:02:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:02:54: #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 15:02:54: 31000000 INFO @ Wed, 22 Jul 2020 15:02:54: #1 tags after filtering in treatment: 7679653 INFO @ Wed, 22 Jul 2020 15:02:54: #1 Redundant rate of treatment: 0.63 INFO @ Wed, 22 Jul 2020 15:02:54: #1 finished! INFO @ Wed, 22 Jul 2020 15:02:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:02:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:02:54: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:02:54: 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 15:02:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.05_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/SRX8357694/SRX8357694.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:02:55: 38000000 INFO @ Wed, 22 Jul 2020 15:02:58: 32000000 INFO @ Wed, 22 Jul 2020 15:02:59: 39000000 INFO @ Wed, 22 Jul 2020 15:03:03: 33000000 INFO @ Wed, 22 Jul 2020 15:03:03: 40000000 INFO @ Wed, 22 Jul 2020 15:03:07: 34000000 INFO @ Wed, 22 Jul 2020 15:03:08: 41000000 INFO @ Wed, 22 Jul 2020 15:03:11: 35000000 INFO @ Wed, 22 Jul 2020 15:03:12: 42000000 INFO @ Wed, 22 Jul 2020 15:03:16: 36000000 INFO @ Wed, 22 Jul 2020 15:03:16: 43000000 INFO @ Wed, 22 Jul 2020 15:03:19: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:03:19: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:03:19: #1 total tags in treatment: 20956157 INFO @ Wed, 22 Jul 2020 15:03:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:03:19: #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 15:03:20: #1 tags after filtering in treatment: 7679653 INFO @ Wed, 22 Jul 2020 15:03:20: #1 Redundant rate of treatment: 0.63 INFO @ Wed, 22 Jul 2020 15:03:20: #1 finished! INFO @ Wed, 22 Jul 2020 15:03:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:03:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:03:20: 37000000 INFO @ Wed, 22 Jul 2020 15:03:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:03:20: 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 15:03:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.10_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/SRX8357694/SRX8357694.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:03:24: 38000000 INFO @ Wed, 22 Jul 2020 15:03:29: 39000000 INFO @ Wed, 22 Jul 2020 15:03:33: 40000000 INFO @ Wed, 22 Jul 2020 15:03:37: 41000000 INFO @ Wed, 22 Jul 2020 15:03:41: 42000000 INFO @ Wed, 22 Jul 2020 15:03:45: 43000000 INFO @ Wed, 22 Jul 2020 15:03:48: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:03:48: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:03:48: #1 total tags in treatment: 20956157 INFO @ Wed, 22 Jul 2020 15:03:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:03:48: #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 15:03:49: #1 tags after filtering in treatment: 7679653 INFO @ Wed, 22 Jul 2020 15:03:49: #1 Redundant rate of treatment: 0.63 INFO @ Wed, 22 Jul 2020 15:03:49: #1 finished! INFO @ Wed, 22 Jul 2020 15:03:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:03:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:03:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:03:49: 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 15:03:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.20_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/SRX8357694/SRX8357694.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357694/SRX8357694.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling