Job ID = 7117657 SRX = SRX8639545 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:41:57 prefetch.2.10.7: 1) Downloading 'SRR12116983'... 2020-07-22T06:41:57 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:44:44 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:44:44 prefetch.2.10.7: 1) 'SRR12116983' was downloaded successfully 2020-07-22T06:44:44 prefetch.2.10.7: 'SRR12116983' has 0 unresolved dependencies Read 22924508 spots for SRR12116983/SRR12116983.sra Written 22924508 spots for SRR12116983/SRR12116983.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: 00:11:06 22924508 reads; of these: 22924508 (100.00%) were paired; of these: 4592238 (20.03%) aligned concordantly 0 times 16163425 (70.51%) aligned concordantly exactly 1 time 2168845 (9.46%) aligned concordantly >1 times ---- 4592238 pairs aligned concordantly 0 times; of these: 221994 (4.83%) aligned discordantly 1 time ---- 4370244 pairs aligned 0 times concordantly or discordantly; of these: 8740488 mates make up the pairs; of these: 8514536 (97.41%) aligned 0 times 138200 (1.58%) aligned exactly 1 time 87752 (1.00%) aligned >1 times 81.43% overall alignment rate Time searching: 00:11:06 Overall time: 00:11:06 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] 325719 / 18535359 = 0.0176 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 16:04:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.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 16:04:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:04:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:01: 1000000 INFO @ Wed, 22 Jul 2020 16:05:06: 2000000 INFO @ Wed, 22 Jul 2020 16:05:11: 3000000 INFO @ Wed, 22 Jul 2020 16:05:16: 4000000 INFO @ Wed, 22 Jul 2020 16:05:20: 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 16:05:25: 6000000 INFO @ Wed, 22 Jul 2020 16:05:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.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 16:05:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:30: 7000000 INFO @ Wed, 22 Jul 2020 16:05:32: 1000000 INFO @ Wed, 22 Jul 2020 16:05:36: 8000000 INFO @ Wed, 22 Jul 2020 16:05:37: 2000000 INFO @ Wed, 22 Jul 2020 16:05:41: 9000000 INFO @ Wed, 22 Jul 2020 16:05:42: 3000000 INFO @ Wed, 22 Jul 2020 16:05:46: 10000000 INFO @ Wed, 22 Jul 2020 16:05:48: 4000000 INFO @ Wed, 22 Jul 2020 16:05:52: 11000000 INFO @ Wed, 22 Jul 2020 16:05:53: 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 16:05:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.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 16:05:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:57: 12000000 INFO @ Wed, 22 Jul 2020 16:05:59: 6000000 INFO @ Wed, 22 Jul 2020 16:06:03: 13000000 INFO @ Wed, 22 Jul 2020 16:06:03: 1000000 INFO @ Wed, 22 Jul 2020 16:06:05: 7000000 INFO @ Wed, 22 Jul 2020 16:06:09: 14000000 INFO @ Wed, 22 Jul 2020 16:06:10: 2000000 INFO @ Wed, 22 Jul 2020 16:06:11: 8000000 INFO @ Wed, 22 Jul 2020 16:06:15: 15000000 INFO @ Wed, 22 Jul 2020 16:06:16: 9000000 INFO @ Wed, 22 Jul 2020 16:06:17: 3000000 INFO @ Wed, 22 Jul 2020 16:06:21: 16000000 INFO @ Wed, 22 Jul 2020 16:06:22: 10000000 INFO @ Wed, 22 Jul 2020 16:06:24: 4000000 INFO @ Wed, 22 Jul 2020 16:06:27: 17000000 INFO @ Wed, 22 Jul 2020 16:06:28: 11000000 INFO @ Wed, 22 Jul 2020 16:06:31: 5000000 INFO @ Wed, 22 Jul 2020 16:06:32: 18000000 INFO @ Wed, 22 Jul 2020 16:06:34: 12000000 INFO @ Wed, 22 Jul 2020 16:06:38: 6000000 INFO @ Wed, 22 Jul 2020 16:06:38: 19000000 INFO @ Wed, 22 Jul 2020 16:06:40: 13000000 INFO @ Wed, 22 Jul 2020 16:06:44: 20000000 INFO @ Wed, 22 Jul 2020 16:06:45: 7000000 INFO @ Wed, 22 Jul 2020 16:06:46: 14000000 INFO @ Wed, 22 Jul 2020 16:06:50: 21000000 INFO @ Wed, 22 Jul 2020 16:06:52: 8000000 INFO @ Wed, 22 Jul 2020 16:06:52: 15000000 INFO @ Wed, 22 Jul 2020 16:06:56: 22000000 INFO @ Wed, 22 Jul 2020 16:06:58: 16000000 INFO @ Wed, 22 Jul 2020 16:06:59: 9000000 INFO @ Wed, 22 Jul 2020 16:07:02: 23000000 INFO @ Wed, 22 Jul 2020 16:07:04: 17000000 INFO @ Wed, 22 Jul 2020 16:07:06: 10000000 INFO @ Wed, 22 Jul 2020 16:07:08: 24000000 INFO @ Wed, 22 Jul 2020 16:07:10: 18000000 INFO @ Wed, 22 Jul 2020 16:07:13: 11000000 INFO @ Wed, 22 Jul 2020 16:07:15: 25000000 INFO @ Wed, 22 Jul 2020 16:07:16: 19000000 INFO @ Wed, 22 Jul 2020 16:07:20: 12000000 INFO @ Wed, 22 Jul 2020 16:07:21: 26000000 INFO @ Wed, 22 Jul 2020 16:07:22: 20000000 INFO @ Wed, 22 Jul 2020 16:07:27: 27000000 INFO @ Wed, 22 Jul 2020 16:07:27: 13000000 INFO @ Wed, 22 Jul 2020 16:07:28: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:07:33: 28000000 INFO @ Wed, 22 Jul 2020 16:07:34: 14000000 INFO @ Wed, 22 Jul 2020 16:07:34: 22000000 INFO @ Wed, 22 Jul 2020 16:07:39: 29000000 INFO @ Wed, 22 Jul 2020 16:07:41: 23000000 INFO @ Wed, 22 Jul 2020 16:07:41: 15000000 INFO @ Wed, 22 Jul 2020 16:07:45: 30000000 INFO @ Wed, 22 Jul 2020 16:07:47: 24000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:07:48: 16000000 INFO @ Wed, 22 Jul 2020 16:07:51: 31000000 INFO @ Wed, 22 Jul 2020 16:07:53: 25000000 INFO @ Wed, 22 Jul 2020 16:07:56: 17000000 INFO @ Wed, 22 Jul 2020 16:07:57: 32000000 INFO @ Wed, 22 Jul 2020 16:07:59: 26000000 INFO @ Wed, 22 Jul 2020 16:08:03: 18000000 INFO @ Wed, 22 Jul 2020 16:08:04: 33000000 INFO @ Wed, 22 Jul 2020 16:08:05: 27000000 INFO @ Wed, 22 Jul 2020 16:08:10: 34000000 INFO @ Wed, 22 Jul 2020 16:08:10: 19000000 INFO @ Wed, 22 Jul 2020 16:08:12: 28000000 INFO @ Wed, 22 Jul 2020 16:08:16: 35000000 INFO @ Wed, 22 Jul 2020 16:08:17: 20000000 INFO @ Wed, 22 Jul 2020 16:08:18: 29000000 INFO @ Wed, 22 Jul 2020 16:08:23: 36000000 INFO @ Wed, 22 Jul 2020 16:08:24: 30000000 INFO @ Wed, 22 Jul 2020 16:08:25: 21000000 INFO @ Wed, 22 Jul 2020 16:08:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:27: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:27: #1 total tags in treatment: 18006844 INFO @ Wed, 22 Jul 2020 16:08:27: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:27: #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 16:08:27: #1 tags after filtering in treatment: 11903877 INFO @ Wed, 22 Jul 2020 16:08:27: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:08:27: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:27: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:28: 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 16:08:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.05_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/SRX8639545/SRX8639545.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:08:31: 31000000 INFO @ Wed, 22 Jul 2020 16:08:32: 22000000 INFO @ Wed, 22 Jul 2020 16:08:37: 32000000 INFO @ Wed, 22 Jul 2020 16:08:39: 23000000 INFO @ Wed, 22 Jul 2020 16:08:43: 33000000 INFO @ Wed, 22 Jul 2020 16:08:46: 24000000 INFO @ Wed, 22 Jul 2020 16:08:50: 34000000 INFO @ Wed, 22 Jul 2020 16:08:54: 25000000 INFO @ Wed, 22 Jul 2020 16:08:56: 35000000 INFO @ Wed, 22 Jul 2020 16:09:01: 26000000 INFO @ Wed, 22 Jul 2020 16:09:02: 36000000 INFO @ Wed, 22 Jul 2020 16:09:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:07: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:07: #1 total tags in treatment: 18006844 INFO @ Wed, 22 Jul 2020 16:09:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:07: #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 16:09:07: #1 tags after filtering in treatment: 11903877 INFO @ Wed, 22 Jul 2020 16:09:07: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:09:07: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:08: 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 16:09:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:08: 27000000 INFO @ Wed, 22 Jul 2020 16:09:15: 28000000 INFO @ Wed, 22 Jul 2020 16:09:22: 29000000 INFO @ Wed, 22 Jul 2020 16:09:29: 30000000 INFO @ Wed, 22 Jul 2020 16:09:36: 31000000 INFO @ Wed, 22 Jul 2020 16:09:43: 32000000 INFO @ Wed, 22 Jul 2020 16:09:49: 33000000 INFO @ Wed, 22 Jul 2020 16:09:56: 34000000 INFO @ Wed, 22 Jul 2020 16:10:03: 35000000 INFO @ Wed, 22 Jul 2020 16:10:10: 36000000 INFO @ Wed, 22 Jul 2020 16:10:14: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:14: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:14: #1 total tags in treatment: 18006844 INFO @ Wed, 22 Jul 2020 16:10:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:14: #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 16:10:15: #1 tags after filtering in treatment: 11903877 INFO @ Wed, 22 Jul 2020 16:10:15: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:10:15: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:15: 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 16:10:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.20_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/SRX8639545/SRX8639545.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639545/SRX8639545.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling