Job ID = 14520169 SRX = SRX10592370 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T09:29:51 prefetch.2.10.7: 1) Downloading 'SRR14227554'... 2022-01-15T09:29:51 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T09:30:48 prefetch.2.10.7: HTTPS download succeed 2022-01-15T09:30:48 prefetch.2.10.7: 1) 'SRR14227554' was downloaded successfully 2022-01-15T09:30:48 prefetch.2.10.7: 'SRR14227554' has 0 unresolved dependencies Read 21536613 spots for SRR14227554/SRR14227554.sra Written 21536613 spots for SRR14227554/SRR14227554.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: 00:12:00 21536613 reads; of these: 21536613 (100.00%) were paired; of these: 626172 (2.91%) aligned concordantly 0 times 18480139 (85.81%) aligned concordantly exactly 1 time 2430302 (11.28%) aligned concordantly >1 times ---- 626172 pairs aligned concordantly 0 times; of these: 41724 (6.66%) aligned discordantly 1 time ---- 584448 pairs aligned 0 times concordantly or discordantly; of these: 1168896 mates make up the pairs; of these: 860504 (73.62%) aligned 0 times 243037 (20.79%) aligned exactly 1 time 65355 (5.59%) aligned >1 times 98.00% overall alignment rate Time searching: 00:12:00 Overall time: 00:12:00 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] 4854456 / 20947847 = 0.2317 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:53:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.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 @ Sat, 15 Jan 2022 18:53:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:53:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:53:36: 1000000 INFO @ Sat, 15 Jan 2022 18:53:41: 2000000 INFO @ Sat, 15 Jan 2022 18:53:45: 3000000 INFO @ Sat, 15 Jan 2022 18:53:50: 4000000 INFO @ Sat, 15 Jan 2022 18:53:54: 5000000 INFO @ Sat, 15 Jan 2022 18:53:59: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:54:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.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 @ Sat, 15 Jan 2022 18:54:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:54:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:54:04: 7000000 INFO @ Sat, 15 Jan 2022 18:54:07: 1000000 INFO @ Sat, 15 Jan 2022 18:54:09: 8000000 INFO @ Sat, 15 Jan 2022 18:54:12: 2000000 INFO @ Sat, 15 Jan 2022 18:54:14: 9000000 INFO @ Sat, 15 Jan 2022 18:54:17: 3000000 INFO @ Sat, 15 Jan 2022 18:54:19: 10000000 INFO @ Sat, 15 Jan 2022 18:54:22: 4000000 INFO @ Sat, 15 Jan 2022 18:54:24: 11000000 INFO @ Sat, 15 Jan 2022 18:54:27: 5000000 INFO @ Sat, 15 Jan 2022 18:54:29: 12000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:54:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.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 @ Sat, 15 Jan 2022 18:54:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:54:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:54:32: 6000000 INFO @ Sat, 15 Jan 2022 18:54:34: 13000000 INFO @ Sat, 15 Jan 2022 18:54:37: 1000000 INFO @ Sat, 15 Jan 2022 18:54:38: 7000000 INFO @ Sat, 15 Jan 2022 18:54:39: 14000000 INFO @ Sat, 15 Jan 2022 18:54:42: 2000000 INFO @ Sat, 15 Jan 2022 18:54:43: 8000000 INFO @ Sat, 15 Jan 2022 18:54:44: 15000000 INFO @ Sat, 15 Jan 2022 18:54:47: 3000000 INFO @ Sat, 15 Jan 2022 18:54:48: 9000000 INFO @ Sat, 15 Jan 2022 18:54:49: 16000000 INFO @ Sat, 15 Jan 2022 18:54:52: 4000000 INFO @ Sat, 15 Jan 2022 18:54:54: 10000000 INFO @ Sat, 15 Jan 2022 18:54:55: 17000000 INFO @ Sat, 15 Jan 2022 18:54:58: 5000000 INFO @ Sat, 15 Jan 2022 18:55:00: 18000000 INFO @ Sat, 15 Jan 2022 18:55:00: 11000000 INFO @ Sat, 15 Jan 2022 18:55:03: 6000000 INFO @ Sat, 15 Jan 2022 18:55:05: 19000000 INFO @ Sat, 15 Jan 2022 18:55:06: 12000000 INFO @ Sat, 15 Jan 2022 18:55:08: 7000000 INFO @ Sat, 15 Jan 2022 18:55:10: 20000000 INFO @ Sat, 15 Jan 2022 18:55:11: 13000000 INFO @ Sat, 15 Jan 2022 18:55:13: 8000000 INFO @ Sat, 15 Jan 2022 18:55:15: 21000000 INFO @ Sat, 15 Jan 2022 18:55:16: 14000000 INFO @ Sat, 15 Jan 2022 18:55:19: 9000000 INFO @ Sat, 15 Jan 2022 18:55:20: 22000000 INFO @ Sat, 15 Jan 2022 18:55:21: 15000000 INFO @ Sat, 15 Jan 2022 18:55:24: 10000000 INFO @ Sat, 15 Jan 2022 18:55:25: 23000000 INFO @ Sat, 15 Jan 2022 18:55:27: 16000000 INFO @ Sat, 15 Jan 2022 18:55:29: 11000000 INFO @ Sat, 15 Jan 2022 18:55:30: 24000000 INFO @ Sat, 15 Jan 2022 18:55:32: 17000000 INFO @ Sat, 15 Jan 2022 18:55:34: 12000000 INFO @ Sat, 15 Jan 2022 18:55:35: 25000000 INFO @ Sat, 15 Jan 2022 18:55:37: 18000000 INFO @ Sat, 15 Jan 2022 18:55:39: 13000000 INFO @ Sat, 15 Jan 2022 18:55:40: 26000000 INFO @ Sat, 15 Jan 2022 18:55:42: 19000000 INFO @ Sat, 15 Jan 2022 18:55:44: 14000000 INFO @ Sat, 15 Jan 2022 18:55:46: 27000000 INFO @ Sat, 15 Jan 2022 18:55:47: 20000000 INFO @ Sat, 15 Jan 2022 18:55:50: 15000000 INFO @ Sat, 15 Jan 2022 18:55:51: 28000000 INFO @ Sat, 15 Jan 2022 18:55:52: 21000000 INFO @ Sat, 15 Jan 2022 18:55:55: 16000000 INFO @ Sat, 15 Jan 2022 18:55:56: 29000000 INFO @ Sat, 15 Jan 2022 18:55:57: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:56:00: 17000000 INFO @ Sat, 15 Jan 2022 18:56:01: 30000000 INFO @ Sat, 15 Jan 2022 18:56:03: 23000000 INFO @ Sat, 15 Jan 2022 18:56:05: 18000000 INFO @ Sat, 15 Jan 2022 18:56:06: 31000000 INFO @ Sat, 15 Jan 2022 18:56:09: 24000000 INFO @ Sat, 15 Jan 2022 18:56:10: 19000000 INFO @ Sat, 15 Jan 2022 18:56:12: 32000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:56:14: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:56:14: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:56:14: #1 total tags in treatment: 16064153 INFO @ Sat, 15 Jan 2022 18:56:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:56:14: 25000000 INFO @ Sat, 15 Jan 2022 18:56:15: #1 tags after filtering in treatment: 9167123 INFO @ Sat, 15 Jan 2022 18:56:15: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 18:56:15: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:56:15: 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 @ Sat, 15 Jan 2022 18:56:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.05_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/SRX10592370/SRX10592370.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:56:16: 20000000 INFO @ Sat, 15 Jan 2022 18:56:20: 26000000 INFO @ Sat, 15 Jan 2022 18:56:21: 21000000 INFO @ Sat, 15 Jan 2022 18:56:26: 22000000 INFO @ Sat, 15 Jan 2022 18:56:26: 27000000 INFO @ Sat, 15 Jan 2022 18:56:31: 23000000 INFO @ Sat, 15 Jan 2022 18:56:32: 28000000 INFO @ Sat, 15 Jan 2022 18:56:37: 24000000 INFO @ Sat, 15 Jan 2022 18:56:38: 29000000 INFO @ Sat, 15 Jan 2022 18:56:42: 25000000 INFO @ Sat, 15 Jan 2022 18:56:44: 30000000 INFO @ Sat, 15 Jan 2022 18:56:47: 26000000 INFO @ Sat, 15 Jan 2022 18:56:50: 31000000 INFO @ Sat, 15 Jan 2022 18:56:53: 27000000 INFO @ Sat, 15 Jan 2022 18:56:56: 32000000 INFO @ Sat, 15 Jan 2022 18:56:58: 28000000 INFO @ Sat, 15 Jan 2022 18:56:59: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:56:59: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:56:59: #1 total tags in treatment: 16064153 INFO @ Sat, 15 Jan 2022 18:56:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:56:59: #1 tags after filtering in treatment: 9167123 INFO @ Sat, 15 Jan 2022 18:56:59: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 18:56:59: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:57:00: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:57:00: 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 @ Sat, 15 Jan 2022 18:57:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.10_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/SRX10592370/SRX10592370.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:57:03: 29000000 INFO @ Sat, 15 Jan 2022 18:57:07: 30000000 INFO @ Sat, 15 Jan 2022 18:57:12: 31000000 INFO @ Sat, 15 Jan 2022 18:57:16: 32000000 INFO @ Sat, 15 Jan 2022 18:57:18: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:57:18: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:57:18: #1 total tags in treatment: 16064153 INFO @ Sat, 15 Jan 2022 18:57:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:57:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:57:19: #1 tags after filtering in treatment: 9167123 INFO @ Sat, 15 Jan 2022 18:57:19: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 18:57:19: #1 finished! INFO @ Sat, 15 Jan 2022 18:57:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:57:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:57:19: 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 @ Sat, 15 Jan 2022 18:57:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.20_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/SRX10592370/SRX10592370.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592370/SRX10592370.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling