Job ID = 2010916 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 27,195,823 reads read : 54,391,646 reads written : 54,391,646 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:00:01 Multiseed full-index search: 00:24:07 27195823 reads; of these: 27195823 (100.00%) were paired; of these: 4995848 (18.37%) aligned concordantly 0 times 9793936 (36.01%) aligned concordantly exactly 1 time 12406039 (45.62%) aligned concordantly >1 times ---- 4995848 pairs aligned concordantly 0 times; of these: 11628 (0.23%) aligned discordantly 1 time ---- 4984220 pairs aligned 0 times concordantly or discordantly; of these: 9968440 mates make up the pairs; of these: 9538393 (95.69%) aligned 0 times 139918 (1.40%) aligned exactly 1 time 290129 (2.91%) aligned >1 times 82.46% overall alignment rate Time searching: 00:24:08 Overall time: 00:24:08 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] 11535179 / 22177144 = 0.5201 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 02:04:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.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, 06 Jul 2019 02:04:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:04:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:04:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.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, 06 Jul 2019 02:04:07: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:04:07: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:04:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.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, 06 Jul 2019 02:04:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:04:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:04:13: 1000000 INFO @ Sat, 06 Jul 2019 02:04:14: 1000000 INFO @ Sat, 06 Jul 2019 02:04:15: 1000000 INFO @ Sat, 06 Jul 2019 02:04:19: 2000000 INFO @ Sat, 06 Jul 2019 02:04:22: 2000000 INFO @ Sat, 06 Jul 2019 02:04:22: 2000000 INFO @ Sat, 06 Jul 2019 02:04:25: 3000000 INFO @ Sat, 06 Jul 2019 02:04:29: 3000000 INFO @ Sat, 06 Jul 2019 02:04:30: 3000000 INFO @ Sat, 06 Jul 2019 02:04:30: 4000000 INFO @ Sat, 06 Jul 2019 02:04:36: 4000000 INFO @ Sat, 06 Jul 2019 02:04:36: 5000000 INFO @ Sat, 06 Jul 2019 02:04:37: 4000000 INFO @ Sat, 06 Jul 2019 02:04:42: 6000000 INFO @ Sat, 06 Jul 2019 02:04:43: 5000000 INFO @ Sat, 06 Jul 2019 02:04:45: 5000000 INFO @ Sat, 06 Jul 2019 02:04:48: 7000000 INFO @ Sat, 06 Jul 2019 02:04:49: 6000000 INFO @ Sat, 06 Jul 2019 02:04:53: 6000000 INFO @ Sat, 06 Jul 2019 02:04:53: 8000000 INFO @ Sat, 06 Jul 2019 02:04:56: 7000000 INFO @ Sat, 06 Jul 2019 02:04:59: 9000000 INFO @ Sat, 06 Jul 2019 02:05:00: 7000000 INFO @ Sat, 06 Jul 2019 02:05:02: 8000000 INFO @ Sat, 06 Jul 2019 02:05:05: 10000000 INFO @ Sat, 06 Jul 2019 02:05:07: 8000000 INFO @ Sat, 06 Jul 2019 02:05:09: 9000000 INFO @ Sat, 06 Jul 2019 02:05:10: 11000000 INFO @ Sat, 06 Jul 2019 02:05:14: 9000000 INFO @ Sat, 06 Jul 2019 02:05:15: 10000000 INFO @ Sat, 06 Jul 2019 02:05:16: 12000000 INFO @ Sat, 06 Jul 2019 02:05:21: 13000000 INFO @ Sat, 06 Jul 2019 02:05:21: 10000000 INFO @ Sat, 06 Jul 2019 02:05:22: 11000000 INFO @ Sat, 06 Jul 2019 02:05:27: 14000000 INFO @ Sat, 06 Jul 2019 02:05:28: 12000000 INFO @ Sat, 06 Jul 2019 02:05:29: 11000000 INFO @ Sat, 06 Jul 2019 02:05:32: 15000000 INFO @ Sat, 06 Jul 2019 02:05:34: 13000000 INFO @ Sat, 06 Jul 2019 02:05:36: 12000000 INFO @ Sat, 06 Jul 2019 02:05:38: 16000000 INFO @ Sat, 06 Jul 2019 02:05:41: 14000000 INFO @ Sat, 06 Jul 2019 02:05:43: 13000000 INFO @ Sat, 06 Jul 2019 02:05:43: 17000000 INFO @ Sat, 06 Jul 2019 02:05:47: 15000000 INFO @ Sat, 06 Jul 2019 02:05:49: 18000000 INFO @ Sat, 06 Jul 2019 02:05:50: 14000000 INFO @ Sat, 06 Jul 2019 02:05:54: 16000000 INFO @ Sat, 06 Jul 2019 02:05:55: 19000000 INFO @ Sat, 06 Jul 2019 02:05:57: 15000000 INFO @ Sat, 06 Jul 2019 02:06:00: 17000000 INFO @ Sat, 06 Jul 2019 02:06:00: 20000000 INFO @ Sat, 06 Jul 2019 02:06:04: 16000000 INFO @ Sat, 06 Jul 2019 02:06:06: 21000000 INFO @ Sat, 06 Jul 2019 02:06:06: 18000000 INFO @ Sat, 06 Jul 2019 02:06:10: #1 tag size is determined as 36 bps INFO @ Sat, 06 Jul 2019 02:06:10: #1 tag size = 36 INFO @ Sat, 06 Jul 2019 02:06:10: #1 total tags in treatment: 10668086 INFO @ Sat, 06 Jul 2019 02:06:10: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:06:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:06:11: #1 tags after filtering in treatment: 5533183 INFO @ Sat, 06 Jul 2019 02:06:11: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 06 Jul 2019 02:06:11: #1 finished! INFO @ Sat, 06 Jul 2019 02:06:11: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:06:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:06:11: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:06:11: 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, 06 Jul 2019 02:06:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.10_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/SRX423253/SRX423253.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:06:12: 17000000 INFO @ Sat, 06 Jul 2019 02:06:13: 19000000 INFO @ Sat, 06 Jul 2019 02:06:19: 18000000 INFO @ Sat, 06 Jul 2019 02:06:19: 20000000 INFO @ Sat, 06 Jul 2019 02:06:25: 21000000 INFO @ Sat, 06 Jul 2019 02:06:26: 19000000 INFO @ Sat, 06 Jul 2019 02:06:30: #1 tag size is determined as 36 bps INFO @ Sat, 06 Jul 2019 02:06:30: #1 tag size = 36 INFO @ Sat, 06 Jul 2019 02:06:30: #1 total tags in treatment: 10668086 INFO @ Sat, 06 Jul 2019 02:06:30: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:06:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:06:30: #1 tags after filtering in treatment: 5533183 INFO @ Sat, 06 Jul 2019 02:06:30: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 06 Jul 2019 02:06:30: #1 finished! INFO @ Sat, 06 Jul 2019 02:06:30: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:06:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:06:31: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:06:31: 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, 06 Jul 2019 02:06:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.20_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/SRX423253/SRX423253.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:06:33: 20000000 INFO @ Sat, 06 Jul 2019 02:06:40: 21000000 INFO @ Sat, 06 Jul 2019 02:06:45: #1 tag size is determined as 36 bps INFO @ Sat, 06 Jul 2019 02:06:45: #1 tag size = 36 INFO @ Sat, 06 Jul 2019 02:06:45: #1 total tags in treatment: 10668086 INFO @ Sat, 06 Jul 2019 02:06:45: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:06:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:06:46: #1 tags after filtering in treatment: 5533183 INFO @ Sat, 06 Jul 2019 02:06:46: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 06 Jul 2019 02:06:46: #1 finished! INFO @ Sat, 06 Jul 2019 02:06:46: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:06:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:06:46: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:06:46: 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, 06 Jul 2019 02:06:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.05_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/SRX423253/SRX423253.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX423253/SRX423253.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。