Job ID = 7116384 SRX = SRX8639475 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:15:42 prefetch.2.10.7: 1) Downloading 'SRR12117039'... 2020-07-22T06:15:42 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:18:17 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:18:17 prefetch.2.10.7: 1) 'SRR12117039' was downloaded successfully 2020-07-22T06:18:17 prefetch.2.10.7: 'SRR12117039' has 0 unresolved dependencies Read 24685596 spots for SRR12117039/SRR12117039.sra Written 24685596 spots for SRR12117039/SRR12117039.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: 00:11:16 24685596 reads; of these: 24685596 (100.00%) were paired; of these: 5080368 (20.58%) aligned concordantly 0 times 17350073 (70.28%) aligned concordantly exactly 1 time 2255155 (9.14%) aligned concordantly >1 times ---- 5080368 pairs aligned concordantly 0 times; of these: 103690 (2.04%) aligned discordantly 1 time ---- 4976678 pairs aligned 0 times concordantly or discordantly; of these: 9953356 mates make up the pairs; of these: 9693624 (97.39%) aligned 0 times 197783 (1.99%) aligned exactly 1 time 61949 (0.62%) aligned >1 times 80.37% overall alignment rate Time searching: 00:11:16 Overall time: 00:11:16 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] 379510 / 19684683 = 0.0193 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 15:39:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.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 15:39:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:52: 1000000 INFO @ Wed, 22 Jul 2020 15:39:57: 2000000 INFO @ Wed, 22 Jul 2020 15:40:02: 3000000 INFO @ Wed, 22 Jul 2020 15:40:07: 4000000 INFO @ Wed, 22 Jul 2020 15:40:13: 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 15:40:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.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 15:40:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:18: 6000000 INFO @ Wed, 22 Jul 2020 15:40:23: 1000000 INFO @ Wed, 22 Jul 2020 15:40:25: 7000000 INFO @ Wed, 22 Jul 2020 15:40:31: 2000000 INFO @ Wed, 22 Jul 2020 15:40:31: 8000000 INFO @ Wed, 22 Jul 2020 15:40:37: 9000000 INFO @ Wed, 22 Jul 2020 15:40:38: 3000000 INFO @ Wed, 22 Jul 2020 15:40:44: 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 15:40:45: 4000000 INFO @ Wed, 22 Jul 2020 15:40:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.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 15:40:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:50: 11000000 INFO @ Wed, 22 Jul 2020 15:40:52: 5000000 INFO @ Wed, 22 Jul 2020 15:40:53: 1000000 INFO @ Wed, 22 Jul 2020 15:40:57: 12000000 INFO @ Wed, 22 Jul 2020 15:40:59: 6000000 INFO @ Wed, 22 Jul 2020 15:40:59: 2000000 INFO @ Wed, 22 Jul 2020 15:41:03: 13000000 INFO @ Wed, 22 Jul 2020 15:41:06: 3000000 INFO @ Wed, 22 Jul 2020 15:41:06: 7000000 INFO @ Wed, 22 Jul 2020 15:41:10: 14000000 INFO @ Wed, 22 Jul 2020 15:41:12: 4000000 INFO @ Wed, 22 Jul 2020 15:41:13: 8000000 INFO @ Wed, 22 Jul 2020 15:41:16: 15000000 INFO @ Wed, 22 Jul 2020 15:41:19: 5000000 INFO @ Wed, 22 Jul 2020 15:41:20: 9000000 INFO @ Wed, 22 Jul 2020 15:41:23: 16000000 INFO @ Wed, 22 Jul 2020 15:41:26: 6000000 INFO @ Wed, 22 Jul 2020 15:41:27: 10000000 INFO @ Wed, 22 Jul 2020 15:41:30: 17000000 INFO @ Wed, 22 Jul 2020 15:41:32: 7000000 INFO @ Wed, 22 Jul 2020 15:41:34: 11000000 INFO @ Wed, 22 Jul 2020 15:41:36: 18000000 INFO @ Wed, 22 Jul 2020 15:41:39: 8000000 INFO @ Wed, 22 Jul 2020 15:41:41: 12000000 INFO @ Wed, 22 Jul 2020 15:41:43: 19000000 INFO @ Wed, 22 Jul 2020 15:41:45: 9000000 INFO @ Wed, 22 Jul 2020 15:41:47: 13000000 INFO @ Wed, 22 Jul 2020 15:41:49: 20000000 INFO @ Wed, 22 Jul 2020 15:41:51: 10000000 INFO @ Wed, 22 Jul 2020 15:41:54: 14000000 INFO @ Wed, 22 Jul 2020 15:41:56: 21000000 INFO @ Wed, 22 Jul 2020 15:41:58: 11000000 INFO @ Wed, 22 Jul 2020 15:42:01: 15000000 INFO @ Wed, 22 Jul 2020 15:42:02: 22000000 INFO @ Wed, 22 Jul 2020 15:42:04: 12000000 INFO @ Wed, 22 Jul 2020 15:42:08: 16000000 INFO @ Wed, 22 Jul 2020 15:42:09: 23000000 INFO @ Wed, 22 Jul 2020 15:42:11: 13000000 INFO @ Wed, 22 Jul 2020 15:42:15: 17000000 INFO @ Wed, 22 Jul 2020 15:42:15: 24000000 INFO @ Wed, 22 Jul 2020 15:42:17: 14000000 INFO @ Wed, 22 Jul 2020 15:42:22: 18000000 INFO @ Wed, 22 Jul 2020 15:42:22: 25000000 INFO @ Wed, 22 Jul 2020 15:42:24: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:42:28: 26000000 INFO @ Wed, 22 Jul 2020 15:42:29: 19000000 INFO @ Wed, 22 Jul 2020 15:42:30: 16000000 INFO @ Wed, 22 Jul 2020 15:42:35: 27000000 INFO @ Wed, 22 Jul 2020 15:42:36: 17000000 INFO @ Wed, 22 Jul 2020 15:42:36: 20000000 INFO @ Wed, 22 Jul 2020 15:42:41: 28000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:42:43: 18000000 INFO @ Wed, 22 Jul 2020 15:42:44: 21000000 INFO @ Wed, 22 Jul 2020 15:42:48: 29000000 INFO @ Wed, 22 Jul 2020 15:42:49: 19000000 INFO @ Wed, 22 Jul 2020 15:42:51: 22000000 INFO @ Wed, 22 Jul 2020 15:42:55: 30000000 INFO @ Wed, 22 Jul 2020 15:42:56: 20000000 INFO @ Wed, 22 Jul 2020 15:42:58: 23000000 INFO @ Wed, 22 Jul 2020 15:43:01: 31000000 INFO @ Wed, 22 Jul 2020 15:43:03: 21000000 INFO @ Wed, 22 Jul 2020 15:43:05: 24000000 INFO @ Wed, 22 Jul 2020 15:43:08: 32000000 INFO @ Wed, 22 Jul 2020 15:43:09: 22000000 INFO @ Wed, 22 Jul 2020 15:43:13: 25000000 INFO @ Wed, 22 Jul 2020 15:43:14: 33000000 INFO @ Wed, 22 Jul 2020 15:43:16: 23000000 INFO @ Wed, 22 Jul 2020 15:43:20: 26000000 INFO @ Wed, 22 Jul 2020 15:43:21: 34000000 INFO @ Wed, 22 Jul 2020 15:43:22: 24000000 INFO @ Wed, 22 Jul 2020 15:43:27: 27000000 INFO @ Wed, 22 Jul 2020 15:43:27: 35000000 INFO @ Wed, 22 Jul 2020 15:43:29: 25000000 INFO @ Wed, 22 Jul 2020 15:43:34: 36000000 INFO @ Wed, 22 Jul 2020 15:43:34: 28000000 INFO @ Wed, 22 Jul 2020 15:43:35: 26000000 INFO @ Wed, 22 Jul 2020 15:43:40: 37000000 INFO @ Wed, 22 Jul 2020 15:43:41: 29000000 INFO @ Wed, 22 Jul 2020 15:43:42: 27000000 INFO @ Wed, 22 Jul 2020 15:43:47: 38000000 INFO @ Wed, 22 Jul 2020 15:43:48: 28000000 INFO @ Wed, 22 Jul 2020 15:43:48: 30000000 INFO @ Wed, 22 Jul 2020 15:43:53: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:43:53: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:43:53: #1 total tags in treatment: 19225817 INFO @ Wed, 22 Jul 2020 15:43:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:43:53: #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 15:43:53: #1 tags after filtering in treatment: 12425012 INFO @ Wed, 22 Jul 2020 15:43:53: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:43:53: #1 finished! INFO @ Wed, 22 Jul 2020 15:43:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:43:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:43:54: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:43:54: 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 15:43:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.05_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/SRX8639475/SRX8639475.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:43:55: 29000000 INFO @ Wed, 22 Jul 2020 15:43:55: 31000000 INFO @ Wed, 22 Jul 2020 15:44:01: 30000000 INFO @ Wed, 22 Jul 2020 15:44:02: 32000000 INFO @ Wed, 22 Jul 2020 15:44:07: 31000000 INFO @ Wed, 22 Jul 2020 15:44:09: 33000000 INFO @ Wed, 22 Jul 2020 15:44:13: 32000000 INFO @ Wed, 22 Jul 2020 15:44:17: 34000000 INFO @ Wed, 22 Jul 2020 15:44:20: 33000000 INFO @ Wed, 22 Jul 2020 15:44:24: 35000000 INFO @ Wed, 22 Jul 2020 15:44:26: 34000000 INFO @ Wed, 22 Jul 2020 15:44:31: 36000000 INFO @ Wed, 22 Jul 2020 15:44:32: 35000000 INFO @ Wed, 22 Jul 2020 15:44:39: 37000000 INFO @ Wed, 22 Jul 2020 15:44:39: 36000000 INFO @ Wed, 22 Jul 2020 15:44:45: 37000000 INFO @ Wed, 22 Jul 2020 15:44:46: 38000000 INFO @ Wed, 22 Jul 2020 15:44:51: 38000000 INFO @ Wed, 22 Jul 2020 15:44:52: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:52: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:52: #1 total tags in treatment: 19225817 INFO @ Wed, 22 Jul 2020 15:44:52: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:52: #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 15:44:53: #1 tags after filtering in treatment: 12425012 INFO @ Wed, 22 Jul 2020 15:44:53: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:44:53: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:53: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:53: 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 15:44:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.10_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/SRX8639475/SRX8639475.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:44:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:57: #1 total tags in treatment: 19225817 INFO @ Wed, 22 Jul 2020 15:44:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:57: #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 15:44:57: #1 tags after filtering in treatment: 12425012 INFO @ Wed, 22 Jul 2020 15:44:57: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:44:57: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:58: 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 15:44:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.20_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/SRX8639475/SRX8639475.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639475/SRX8639475.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling