Job ID = 7116305 SRX = SRX8639472 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:15:06 prefetch.2.10.7: 1) Downloading 'SRR12116972'... 2020-07-22T06:15:06 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:16:58 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:16:58 prefetch.2.10.7: 1) 'SRR12116972' was downloaded successfully 2020-07-22T06:16:58 prefetch.2.10.7: 'SRR12116972' has 0 unresolved dependencies Read 23516127 spots for SRR12116972/SRR12116972.sra Written 23516127 spots for SRR12116972/SRR12116972.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: 00:10:29 23516127 reads; of these: 23516127 (100.00%) were paired; of these: 5152888 (21.91%) aligned concordantly 0 times 16159829 (68.72%) aligned concordantly exactly 1 time 2203410 (9.37%) aligned concordantly >1 times ---- 5152888 pairs aligned concordantly 0 times; of these: 453875 (8.81%) aligned discordantly 1 time ---- 4699013 pairs aligned 0 times concordantly or discordantly; of these: 9398026 mates make up the pairs; of these: 9012779 (95.90%) aligned 0 times 208553 (2.22%) aligned exactly 1 time 176694 (1.88%) aligned >1 times 80.84% overall alignment rate Time searching: 00:10:29 Overall time: 00:10:29 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 16 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] 339477 / 18745015 = 0.0181 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 15:37:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.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 15:37:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:11: 1000000 INFO @ Wed, 22 Jul 2020 15:37:17: 2000000 INFO @ Wed, 22 Jul 2020 15:37:22: 3000000 INFO @ Wed, 22 Jul 2020 15:37:27: 4000000 INFO @ Wed, 22 Jul 2020 15:37:32: 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 15:37:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.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 15:37:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:37: 6000000 INFO @ Wed, 22 Jul 2020 15:37:42: 1000000 INFO @ Wed, 22 Jul 2020 15:37:42: 7000000 INFO @ Wed, 22 Jul 2020 15:37:47: 2000000 INFO @ Wed, 22 Jul 2020 15:37:48: 8000000 INFO @ Wed, 22 Jul 2020 15:37:52: 3000000 INFO @ Wed, 22 Jul 2020 15:37:54: 9000000 INFO @ Wed, 22 Jul 2020 15:37:57: 4000000 INFO @ Wed, 22 Jul 2020 15:38:00: 10000000 INFO @ Wed, 22 Jul 2020 15:38:03: 5000000 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 15:38:05: 11000000 INFO @ Wed, 22 Jul 2020 15:38:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.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 15:38:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:38:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:38:08: 6000000 INFO @ Wed, 22 Jul 2020 15:38:10: 12000000 INFO @ Wed, 22 Jul 2020 15:38:11: 1000000 INFO @ Wed, 22 Jul 2020 15:38:14: 7000000 INFO @ Wed, 22 Jul 2020 15:38:16: 13000000 INFO @ Wed, 22 Jul 2020 15:38:17: 2000000 INFO @ Wed, 22 Jul 2020 15:38:19: 8000000 INFO @ Wed, 22 Jul 2020 15:38:21: 14000000 INFO @ Wed, 22 Jul 2020 15:38:23: 3000000 INFO @ Wed, 22 Jul 2020 15:38:24: 9000000 INFO @ Wed, 22 Jul 2020 15:38:26: 15000000 INFO @ Wed, 22 Jul 2020 15:38:28: 4000000 INFO @ Wed, 22 Jul 2020 15:38:29: 10000000 INFO @ Wed, 22 Jul 2020 15:38:32: 16000000 INFO @ Wed, 22 Jul 2020 15:38:33: 5000000 INFO @ Wed, 22 Jul 2020 15:38:34: 11000000 INFO @ Wed, 22 Jul 2020 15:38:37: 17000000 INFO @ Wed, 22 Jul 2020 15:38:39: 6000000 INFO @ Wed, 22 Jul 2020 15:38:40: 12000000 INFO @ Wed, 22 Jul 2020 15:38:42: 18000000 INFO @ Wed, 22 Jul 2020 15:38:45: 7000000 INFO @ Wed, 22 Jul 2020 15:38:46: 13000000 INFO @ Wed, 22 Jul 2020 15:38:48: 19000000 INFO @ Wed, 22 Jul 2020 15:38:50: 8000000 INFO @ Wed, 22 Jul 2020 15:38:52: 14000000 INFO @ Wed, 22 Jul 2020 15:38:53: 20000000 INFO @ Wed, 22 Jul 2020 15:38:56: 9000000 INFO @ Wed, 22 Jul 2020 15:38:57: 15000000 INFO @ Wed, 22 Jul 2020 15:38:59: 21000000 INFO @ Wed, 22 Jul 2020 15:39:02: 10000000 INFO @ Wed, 22 Jul 2020 15:39:03: 16000000 INFO @ Wed, 22 Jul 2020 15:39:05: 22000000 INFO @ Wed, 22 Jul 2020 15:39:07: 11000000 INFO @ Wed, 22 Jul 2020 15:39:09: 17000000 INFO @ Wed, 22 Jul 2020 15:39:10: 23000000 INFO @ Wed, 22 Jul 2020 15:39:13: 12000000 INFO @ Wed, 22 Jul 2020 15:39:14: 18000000 INFO @ Wed, 22 Jul 2020 15:39:16: 24000000 INFO @ Wed, 22 Jul 2020 15:39:18: 13000000 INFO @ Wed, 22 Jul 2020 15:39:20: 19000000 INFO @ Wed, 22 Jul 2020 15:39:22: 25000000 INFO @ Wed, 22 Jul 2020 15:39:23: 14000000 INFO @ Wed, 22 Jul 2020 15:39:25: 20000000 INFO @ Wed, 22 Jul 2020 15:39:28: 26000000 INFO @ Wed, 22 Jul 2020 15:39:29: 15000000 INFO @ Wed, 22 Jul 2020 15:39:30: 21000000 INFO @ Wed, 22 Jul 2020 15:39:33: 27000000 INFO @ Wed, 22 Jul 2020 15:39:34: 16000000 INFO @ Wed, 22 Jul 2020 15:39:35: 22000000 INFO @ Wed, 22 Jul 2020 15:39:39: 28000000 INFO @ Wed, 22 Jul 2020 15:39:39: 17000000 INFO @ Wed, 22 Jul 2020 15:39:40: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:39:45: 18000000 INFO @ Wed, 22 Jul 2020 15:39:45: 29000000 INFO @ Wed, 22 Jul 2020 15:39:45: 24000000 INFO @ Wed, 22 Jul 2020 15:39:50: 19000000 INFO @ Wed, 22 Jul 2020 15:39:51: 25000000 INFO @ Wed, 22 Jul 2020 15:39:51: 30000000 INFO @ Wed, 22 Jul 2020 15:39:56: 26000000 INFO @ Wed, 22 Jul 2020 15:39:56: 20000000 INFO @ Wed, 22 Jul 2020 15:39:56: 31000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:40:01: 27000000 INFO @ Wed, 22 Jul 2020 15:40:02: 21000000 INFO @ Wed, 22 Jul 2020 15:40:02: 32000000 INFO @ Wed, 22 Jul 2020 15:40:06: 28000000 INFO @ Wed, 22 Jul 2020 15:40:07: 22000000 INFO @ Wed, 22 Jul 2020 15:40:08: 33000000 INFO @ Wed, 22 Jul 2020 15:40:11: 29000000 INFO @ Wed, 22 Jul 2020 15:40:13: 23000000 INFO @ Wed, 22 Jul 2020 15:40:13: 34000000 INFO @ Wed, 22 Jul 2020 15:40:16: 30000000 INFO @ Wed, 22 Jul 2020 15:40:19: 24000000 INFO @ Wed, 22 Jul 2020 15:40:19: 35000000 INFO @ Wed, 22 Jul 2020 15:40:21: 31000000 INFO @ Wed, 22 Jul 2020 15:40:24: 25000000 INFO @ Wed, 22 Jul 2020 15:40:25: 36000000 INFO @ Wed, 22 Jul 2020 15:40:27: 32000000 INFO @ Wed, 22 Jul 2020 15:40:30: 37000000 INFO @ Wed, 22 Jul 2020 15:40:30: 26000000 INFO @ Wed, 22 Jul 2020 15:40:32: 33000000 INFO @ Wed, 22 Jul 2020 15:40:32: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:40:32: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:40:32: #1 total tags in treatment: 18026317 INFO @ Wed, 22 Jul 2020 15:40:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:40:32: #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 15:40:33: #1 tags after filtering in treatment: 11824230 INFO @ Wed, 22 Jul 2020 15:40:33: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:40:33: #1 finished! INFO @ Wed, 22 Jul 2020 15:40:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:40:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:40:33: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:40:33: 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 15:40:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.05_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/SRX8639472/SRX8639472.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:40:36: 27000000 INFO @ Wed, 22 Jul 2020 15:40:37: 34000000 INFO @ Wed, 22 Jul 2020 15:40:42: 35000000 INFO @ Wed, 22 Jul 2020 15:40:42: 28000000 INFO @ Wed, 22 Jul 2020 15:40:47: 36000000 INFO @ Wed, 22 Jul 2020 15:40:48: 29000000 INFO @ Wed, 22 Jul 2020 15:40:52: 37000000 INFO @ Wed, 22 Jul 2020 15:40:54: 30000000 INFO @ Wed, 22 Jul 2020 15:40:54: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:40:54: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:40:54: #1 total tags in treatment: 18026317 INFO @ Wed, 22 Jul 2020 15:40:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:40:54: #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 15:40:54: #1 tags after filtering in treatment: 11824230 INFO @ Wed, 22 Jul 2020 15:40:54: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:40:54: #1 finished! INFO @ Wed, 22 Jul 2020 15:40:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:40:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:40:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:40:55: 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 15:40:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.10_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/SRX8639472/SRX8639472.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:40:59: 31000000 INFO @ Wed, 22 Jul 2020 15:41:05: 32000000 INFO @ Wed, 22 Jul 2020 15:41:10: 33000000 INFO @ Wed, 22 Jul 2020 15:41:16: 34000000 INFO @ Wed, 22 Jul 2020 15:41:22: 35000000 INFO @ Wed, 22 Jul 2020 15:41:27: 36000000 INFO @ Wed, 22 Jul 2020 15:41:33: 37000000 INFO @ Wed, 22 Jul 2020 15:41:34: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:41:34: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:41:34: #1 total tags in treatment: 18026317 INFO @ Wed, 22 Jul 2020 15:41:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:41:34: #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 15:41:35: #1 tags after filtering in treatment: 11824230 INFO @ Wed, 22 Jul 2020 15:41:35: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:41:35: #1 finished! INFO @ Wed, 22 Jul 2020 15:41:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:41:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:41:35: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:41:35: 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 15:41:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.20_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/SRX8639472/SRX8639472.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639472/SRX8639472.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling