Job ID = 7117564 SRX = SRX8639542 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:40:40 prefetch.2.10.7: 1) Downloading 'SRR12116980'... 2020-07-22T06:40:40 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:44:32 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:44:32 prefetch.2.10.7: 1) 'SRR12116980' was downloaded successfully 2020-07-22T06:44:32 prefetch.2.10.7: 'SRR12116980' has 0 unresolved dependencies Read 27356563 spots for SRR12116980/SRR12116980.sra Written 27356563 spots for SRR12116980/SRR12116980.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: 00:13:11 27356563 reads; of these: 27356563 (100.00%) were paired; of these: 4919258 (17.98%) aligned concordantly 0 times 19894475 (72.72%) aligned concordantly exactly 1 time 2542830 (9.30%) aligned concordantly >1 times ---- 4919258 pairs aligned concordantly 0 times; of these: 119089 (2.42%) aligned discordantly 1 time ---- 4800169 pairs aligned 0 times concordantly or discordantly; of these: 9600338 mates make up the pairs; of these: 9306161 (96.94%) aligned 0 times 220429 (2.30%) aligned exactly 1 time 73748 (0.77%) aligned >1 times 82.99% overall alignment rate Time searching: 00:13:11 Overall time: 00:13:11 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] 488501 / 22527226 = 0.0217 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 16:09:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.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 16:09:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:09:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:09:33: 1000000 INFO @ Wed, 22 Jul 2020 16:09:37: 2000000 INFO @ Wed, 22 Jul 2020 16:09:42: 3000000 INFO @ Wed, 22 Jul 2020 16:09:46: 4000000 INFO @ Wed, 22 Jul 2020 16:09:51: 5000000 INFO @ Wed, 22 Jul 2020 16:09:55: 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 16:09:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.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 16:09:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:09:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:10:00: 7000000 INFO @ Wed, 22 Jul 2020 16:10:02: 1000000 INFO @ Wed, 22 Jul 2020 16:10:04: 8000000 INFO @ Wed, 22 Jul 2020 16:10:07: 2000000 INFO @ Wed, 22 Jul 2020 16:10:09: 9000000 INFO @ Wed, 22 Jul 2020 16:10:11: 3000000 INFO @ Wed, 22 Jul 2020 16:10:13: 10000000 INFO @ Wed, 22 Jul 2020 16:10:16: 4000000 INFO @ Wed, 22 Jul 2020 16:10:18: 11000000 INFO @ Wed, 22 Jul 2020 16:10:21: 5000000 INFO @ Wed, 22 Jul 2020 16:10:22: 12000000 INFO @ Wed, 22 Jul 2020 16:10:25: 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 16:10:27: 13000000 INFO @ Wed, 22 Jul 2020 16:10:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.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 16:10:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:10:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:10:29: 7000000 INFO @ Wed, 22 Jul 2020 16:10:31: 14000000 INFO @ Wed, 22 Jul 2020 16:10:32: 1000000 INFO @ Wed, 22 Jul 2020 16:10:34: 8000000 INFO @ Wed, 22 Jul 2020 16:10:36: 15000000 INFO @ Wed, 22 Jul 2020 16:10:37: 2000000 INFO @ Wed, 22 Jul 2020 16:10:38: 9000000 INFO @ Wed, 22 Jul 2020 16:10:40: 16000000 INFO @ Wed, 22 Jul 2020 16:10:41: 3000000 INFO @ Wed, 22 Jul 2020 16:10:43: 10000000 INFO @ Wed, 22 Jul 2020 16:10:45: 17000000 INFO @ Wed, 22 Jul 2020 16:10:45: 4000000 INFO @ Wed, 22 Jul 2020 16:10:47: 11000000 INFO @ Wed, 22 Jul 2020 16:10:49: 18000000 INFO @ Wed, 22 Jul 2020 16:10:50: 5000000 INFO @ Wed, 22 Jul 2020 16:10:52: 12000000 INFO @ Wed, 22 Jul 2020 16:10:54: 19000000 INFO @ Wed, 22 Jul 2020 16:10:54: 6000000 INFO @ Wed, 22 Jul 2020 16:10:56: 13000000 INFO @ Wed, 22 Jul 2020 16:10:58: 20000000 INFO @ Wed, 22 Jul 2020 16:10:59: 7000000 INFO @ Wed, 22 Jul 2020 16:11:01: 14000000 INFO @ Wed, 22 Jul 2020 16:11:03: 21000000 INFO @ Wed, 22 Jul 2020 16:11:03: 8000000 INFO @ Wed, 22 Jul 2020 16:11:05: 15000000 INFO @ Wed, 22 Jul 2020 16:11:07: 9000000 INFO @ Wed, 22 Jul 2020 16:11:07: 22000000 INFO @ Wed, 22 Jul 2020 16:11:10: 16000000 INFO @ Wed, 22 Jul 2020 16:11:11: 10000000 INFO @ Wed, 22 Jul 2020 16:11:12: 23000000 INFO @ Wed, 22 Jul 2020 16:11:14: 17000000 INFO @ Wed, 22 Jul 2020 16:11:16: 11000000 INFO @ Wed, 22 Jul 2020 16:11:16: 24000000 INFO @ Wed, 22 Jul 2020 16:11:19: 18000000 INFO @ Wed, 22 Jul 2020 16:11:20: 12000000 INFO @ Wed, 22 Jul 2020 16:11:21: 25000000 INFO @ Wed, 22 Jul 2020 16:11:23: 19000000 INFO @ Wed, 22 Jul 2020 16:11:25: 13000000 INFO @ Wed, 22 Jul 2020 16:11:25: 26000000 INFO @ Wed, 22 Jul 2020 16:11:28: 20000000 INFO @ Wed, 22 Jul 2020 16:11:29: 14000000 INFO @ Wed, 22 Jul 2020 16:11:30: 27000000 INFO @ Wed, 22 Jul 2020 16:11:32: 21000000 INFO @ Wed, 22 Jul 2020 16:11:33: 15000000 INFO @ Wed, 22 Jul 2020 16:11:35: 28000000 INFO @ Wed, 22 Jul 2020 16:11:37: 22000000 INFO @ Wed, 22 Jul 2020 16:11:38: 16000000 INFO @ Wed, 22 Jul 2020 16:11:39: 29000000 INFO @ Wed, 22 Jul 2020 16:11:41: 23000000 INFO @ Wed, 22 Jul 2020 16:11:42: 17000000 INFO @ Wed, 22 Jul 2020 16:11:44: 30000000 INFO @ Wed, 22 Jul 2020 16:11:46: 24000000 INFO @ Wed, 22 Jul 2020 16:11:46: 18000000 INFO @ Wed, 22 Jul 2020 16:11:48: 31000000 INFO @ Wed, 22 Jul 2020 16:11:50: 25000000 INFO @ Wed, 22 Jul 2020 16:11:51: 19000000 INFO @ Wed, 22 Jul 2020 16:11:53: 32000000 INFO @ Wed, 22 Jul 2020 16:11:55: 26000000 INFO @ Wed, 22 Jul 2020 16:11:55: 20000000 INFO @ Wed, 22 Jul 2020 16:11:57: 33000000 INFO @ Wed, 22 Jul 2020 16:11:59: 27000000 INFO @ Wed, 22 Jul 2020 16:12:00: 21000000 INFO @ Wed, 22 Jul 2020 16:12:02: 34000000 INFO @ Wed, 22 Jul 2020 16:12:04: 22000000 INFO @ Wed, 22 Jul 2020 16:12:04: 28000000 INFO @ Wed, 22 Jul 2020 16:12:06: 35000000 INFO @ Wed, 22 Jul 2020 16:12:08: 23000000 INFO @ Wed, 22 Jul 2020 16:12:09: 29000000 INFO @ Wed, 22 Jul 2020 16:12:11: 36000000 INFO @ Wed, 22 Jul 2020 16:12:13: 24000000 INFO @ Wed, 22 Jul 2020 16:12:13: 30000000 INFO @ Wed, 22 Jul 2020 16:12:15: 37000000 INFO @ Wed, 22 Jul 2020 16:12:17: 25000000 INFO @ Wed, 22 Jul 2020 16:12:18: 31000000 INFO @ Wed, 22 Jul 2020 16:12:20: 38000000 INFO @ Wed, 22 Jul 2020 16:12:22: 26000000 INFO @ Wed, 22 Jul 2020 16:12:22: 32000000 INFO @ Wed, 22 Jul 2020 16:12:24: 39000000 INFO @ Wed, 22 Jul 2020 16:12:26: 27000000 INFO @ Wed, 22 Jul 2020 16:12:27: 33000000 INFO @ Wed, 22 Jul 2020 16:12:28: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:12:30: 28000000 INFO @ Wed, 22 Jul 2020 16:12:31: 34000000 INFO @ Wed, 22 Jul 2020 16:12:33: 41000000 INFO @ Wed, 22 Jul 2020 16:12:35: 29000000 INFO @ Wed, 22 Jul 2020 16:12:36: 35000000 INFO @ Wed, 22 Jul 2020 16:12:37: 42000000 INFO @ Wed, 22 Jul 2020 16:12:39: 30000000 INFO @ Wed, 22 Jul 2020 16:12:40: 36000000 INFO @ Wed, 22 Jul 2020 16:12:41: 43000000 INFO @ Wed, 22 Jul 2020 16:12:44: 31000000 INFO @ Wed, 22 Jul 2020 16:12:44: 37000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:12:46: 44000000 INFO @ Wed, 22 Jul 2020 16:12:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:12:48: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:12:48: #1 total tags in treatment: 21948985 INFO @ Wed, 22 Jul 2020 16:12:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:12:48: #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 16:12:48: 32000000 INFO @ Wed, 22 Jul 2020 16:12:48: #1 tags after filtering in treatment: 13466907 INFO @ Wed, 22 Jul 2020 16:12:48: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:12:48: #1 finished! INFO @ Wed, 22 Jul 2020 16:12:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:12:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:12:49: 38000000 INFO @ Wed, 22 Jul 2020 16:12:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:12:49: 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 16:12:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.05_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/SRX8639542/SRX8639542.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:12:53: 33000000 INFO @ Wed, 22 Jul 2020 16:12:53: 39000000 INFO @ Wed, 22 Jul 2020 16:12:57: 34000000 INFO @ Wed, 22 Jul 2020 16:12:58: 40000000 INFO @ Wed, 22 Jul 2020 16:13:01: 35000000 INFO @ Wed, 22 Jul 2020 16:13:02: 41000000 INFO @ Wed, 22 Jul 2020 16:13:06: 36000000 INFO @ Wed, 22 Jul 2020 16:13:07: 42000000 INFO @ Wed, 22 Jul 2020 16:13:10: 37000000 INFO @ Wed, 22 Jul 2020 16:13:11: 43000000 INFO @ Wed, 22 Jul 2020 16:13:14: 38000000 INFO @ Wed, 22 Jul 2020 16:13:15: 44000000 INFO @ Wed, 22 Jul 2020 16:13:17: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:13:17: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:13:17: #1 total tags in treatment: 21948985 INFO @ Wed, 22 Jul 2020 16:13:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:13:17: #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 16:13:18: #1 tags after filtering in treatment: 13466907 INFO @ Wed, 22 Jul 2020 16:13:18: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:13:18: #1 finished! INFO @ Wed, 22 Jul 2020 16:13:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:13:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:13:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:13:19: 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 16:13:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.10_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/SRX8639542/SRX8639542.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:13:19: 39000000 INFO @ Wed, 22 Jul 2020 16:13:23: 40000000 INFO @ Wed, 22 Jul 2020 16:13:27: 41000000 INFO @ Wed, 22 Jul 2020 16:13:31: 42000000 INFO @ Wed, 22 Jul 2020 16:13:36: 43000000 INFO @ Wed, 22 Jul 2020 16:13:40: 44000000 INFO @ Wed, 22 Jul 2020 16:13:42: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:13:42: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:13:42: #1 total tags in treatment: 21948985 INFO @ Wed, 22 Jul 2020 16:13:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:13:42: #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 16:13:42: #1 tags after filtering in treatment: 13466907 INFO @ Wed, 22 Jul 2020 16:13:42: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:13:42: #1 finished! INFO @ Wed, 22 Jul 2020 16:13:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:13:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:13:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:13:43: 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 16:13:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.20_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/SRX8639542/SRX8639542.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639542/SRX8639542.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling