Job ID = 2590293 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 17,133,196 reads read : 34,266,392 reads written : 34,266,392 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: 00:00:00 Multiseed full-index search: 00:28:40 17133196 reads; of these: 17133196 (100.00%) were paired; of these: 5242620 (30.60%) aligned concordantly 0 times 10582751 (61.77%) aligned concordantly exactly 1 time 1307825 (7.63%) aligned concordantly >1 times ---- 5242620 pairs aligned concordantly 0 times; of these: 1774446 (33.85%) aligned discordantly 1 time ---- 3468174 pairs aligned 0 times concordantly or discordantly; of these: 6936348 mates make up the pairs; of these: 5853959 (84.40%) aligned 0 times 661329 (9.53%) aligned exactly 1 time 421060 (6.07%) aligned >1 times 82.92% overall alignment rate Time searching: 00:28:40 Overall time: 00:28:40 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 104069 / 13526680 = 0.0077 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 @ Mon, 12 Aug 2019 21:40:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 12 Aug 2019 21:40:17: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:40:17: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:40:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 12 Aug 2019 21:40:18: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:40:18: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:40:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 12 Aug 2019 21:40:19: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:40:19: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:40:30: 1000000 INFO @ Mon, 12 Aug 2019 21:40:31: 1000000 INFO @ Mon, 12 Aug 2019 21:40:32: 1000000 INFO @ Mon, 12 Aug 2019 21:40:39: 2000000 INFO @ Mon, 12 Aug 2019 21:40:45: 2000000 INFO @ Mon, 12 Aug 2019 21:40:46: 2000000 INFO @ Mon, 12 Aug 2019 21:40:49: 3000000 INFO @ Mon, 12 Aug 2019 21:40:58: 3000000 INFO @ Mon, 12 Aug 2019 21:40:58: 4000000 INFO @ Mon, 12 Aug 2019 21:40:59: 3000000 INFO @ Mon, 12 Aug 2019 21:41:07: 5000000 INFO @ Mon, 12 Aug 2019 21:41:11: 4000000 INFO @ Mon, 12 Aug 2019 21:41:12: 4000000 INFO @ Mon, 12 Aug 2019 21:41:17: 6000000 INFO @ Mon, 12 Aug 2019 21:41:25: 5000000 INFO @ Mon, 12 Aug 2019 21:41:26: 5000000 INFO @ Mon, 12 Aug 2019 21:41:26: 7000000 INFO @ Mon, 12 Aug 2019 21:41:36: 8000000 INFO @ Mon, 12 Aug 2019 21:41:38: 6000000 INFO @ Mon, 12 Aug 2019 21:41:39: 6000000 INFO @ Mon, 12 Aug 2019 21:41:46: 9000000 INFO @ Mon, 12 Aug 2019 21:41:51: 7000000 INFO @ Mon, 12 Aug 2019 21:41:53: 7000000 INFO @ Mon, 12 Aug 2019 21:41:56: 10000000 INFO @ Mon, 12 Aug 2019 21:42:05: 8000000 INFO @ Mon, 12 Aug 2019 21:42:05: 11000000 INFO @ Mon, 12 Aug 2019 21:42:06: 8000000 INFO @ Mon, 12 Aug 2019 21:42:16: 12000000 INFO @ Mon, 12 Aug 2019 21:42:18: 9000000 INFO @ Mon, 12 Aug 2019 21:42:19: 9000000 INFO @ Mon, 12 Aug 2019 21:42:25: 13000000 INFO @ Mon, 12 Aug 2019 21:42:31: 10000000 INFO @ Mon, 12 Aug 2019 21:42:32: 10000000 INFO @ Mon, 12 Aug 2019 21:42:34: 14000000 INFO @ Mon, 12 Aug 2019 21:42:43: 15000000 INFO @ Mon, 12 Aug 2019 21:42:44: 11000000 INFO @ Mon, 12 Aug 2019 21:42:45: 11000000 INFO @ Mon, 12 Aug 2019 21:42:52: 16000000 INFO @ Mon, 12 Aug 2019 21:42:57: 12000000 INFO @ Mon, 12 Aug 2019 21:42:59: 12000000 INFO @ Mon, 12 Aug 2019 21:43:01: 17000000 INFO @ Mon, 12 Aug 2019 21:43:10: 18000000 INFO @ Mon, 12 Aug 2019 21:43:10: 13000000 INFO @ Mon, 12 Aug 2019 21:43:12: 13000000 INFO @ Mon, 12 Aug 2019 21:43:19: 19000000 INFO @ Mon, 12 Aug 2019 21:43:24: 14000000 INFO @ Mon, 12 Aug 2019 21:43:25: 14000000 INFO @ Mon, 12 Aug 2019 21:43:29: 20000000 INFO @ Mon, 12 Aug 2019 21:43:37: 15000000 INFO @ Mon, 12 Aug 2019 21:43:38: 15000000 INFO @ Mon, 12 Aug 2019 21:43:38: 21000000 INFO @ Mon, 12 Aug 2019 21:43:48: 22000000 INFO @ Mon, 12 Aug 2019 21:43:50: 16000000 INFO @ Mon, 12 Aug 2019 21:43:51: 16000000 INFO @ Mon, 12 Aug 2019 21:43:57: 23000000 INFO @ Mon, 12 Aug 2019 21:44:03: 17000000 INFO @ Mon, 12 Aug 2019 21:44:04: 17000000 INFO @ Mon, 12 Aug 2019 21:44:07: 24000000 INFO @ Mon, 12 Aug 2019 21:44:16: 18000000 INFO @ Mon, 12 Aug 2019 21:44:17: 25000000 INFO @ Mon, 12 Aug 2019 21:44:17: 18000000 INFO @ Mon, 12 Aug 2019 21:44:26: 26000000 INFO @ Mon, 12 Aug 2019 21:44:29: 19000000 INFO @ Mon, 12 Aug 2019 21:44:30: 19000000 INFO @ Mon, 12 Aug 2019 21:44:36: 27000000 INFO @ Mon, 12 Aug 2019 21:44:42: 20000000 INFO @ Mon, 12 Aug 2019 21:44:43: 20000000 INFO @ Mon, 12 Aug 2019 21:44:46: 28000000 INFO @ Mon, 12 Aug 2019 21:44:48: #1 tag size is determined as 101 bps INFO @ Mon, 12 Aug 2019 21:44:48: #1 tag size = 101 INFO @ Mon, 12 Aug 2019 21:44:48: #1 total tags in treatment: 11791585 INFO @ Mon, 12 Aug 2019 21:44:48: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:44:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 21:44:48: #1 tags after filtering in treatment: 11319103 INFO @ Mon, 12 Aug 2019 21:44:48: #1 Redundant rate of treatment: 0.04 INFO @ Mon, 12 Aug 2019 21:44:48: #1 finished! INFO @ Mon, 12 Aug 2019 21:44:48: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:44:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:44:49: #2 number of paired peaks: 80 WARNING @ Mon, 12 Aug 2019 21:44:49: Too few paired peaks (80) 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 @ Mon, 12 Aug 2019 21:44:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.20_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/dm3/SRX2950507/SRX2950507.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 21:44:54: 21000000 INFO @ Mon, 12 Aug 2019 21:44:56: 21000000 INFO @ Mon, 12 Aug 2019 21:45:07: 22000000 INFO @ Mon, 12 Aug 2019 21:45:09: 22000000 INFO @ Mon, 12 Aug 2019 21:45:20: 23000000 INFO @ Mon, 12 Aug 2019 21:45:21: 23000000 INFO @ Mon, 12 Aug 2019 21:45:33: 24000000 INFO @ Mon, 12 Aug 2019 21:45:35: 24000000 INFO @ Mon, 12 Aug 2019 21:45:46: 25000000 INFO @ Mon, 12 Aug 2019 21:45:48: 25000000 INFO @ Mon, 12 Aug 2019 21:45:59: 26000000 INFO @ Mon, 12 Aug 2019 21:46:01: 26000000 INFO @ Mon, 12 Aug 2019 21:46:12: 27000000 INFO @ Mon, 12 Aug 2019 21:46:13: 27000000 INFO @ Mon, 12 Aug 2019 21:46:25: 28000000 INFO @ Mon, 12 Aug 2019 21:46:26: 28000000 INFO @ Mon, 12 Aug 2019 21:46:28: #1 tag size is determined as 101 bps INFO @ Mon, 12 Aug 2019 21:46:28: #1 tag size = 101 INFO @ Mon, 12 Aug 2019 21:46:28: #1 total tags in treatment: 11791585 INFO @ Mon, 12 Aug 2019 21:46:28: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:46:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 21:46:28: #1 tags after filtering in treatment: 11319103 INFO @ Mon, 12 Aug 2019 21:46:28: #1 Redundant rate of treatment: 0.04 INFO @ Mon, 12 Aug 2019 21:46:28: #1 finished! INFO @ Mon, 12 Aug 2019 21:46:28: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:46:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:46:29: #1 tag size is determined as 101 bps INFO @ Mon, 12 Aug 2019 21:46:29: #1 tag size = 101 INFO @ Mon, 12 Aug 2019 21:46:29: #1 total tags in treatment: 11791585 INFO @ Mon, 12 Aug 2019 21:46:29: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:46:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 21:46:29: #2 number of paired peaks: 80 WARNING @ Mon, 12 Aug 2019 21:46:29: Too few paired peaks (80) 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 @ Mon, 12 Aug 2019 21:46:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.05_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/dm3/SRX2950507/SRX2950507.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 21:46:29: #1 tags after filtering in treatment: 11319103 INFO @ Mon, 12 Aug 2019 21:46:29: #1 Redundant rate of treatment: 0.04 INFO @ Mon, 12 Aug 2019 21:46:29: #1 finished! INFO @ Mon, 12 Aug 2019 21:46:29: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:46:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:46:30: #2 number of paired peaks: 80 WARNING @ Mon, 12 Aug 2019 21:46:30: Too few paired peaks (80) 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 @ Mon, 12 Aug 2019 21:46:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.10_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/dm3/SRX2950507/SRX2950507.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950507/SRX2950507.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。