Job ID = 2590960 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 19,925,662 reads read : 39,851,324 reads written : 39,851,324 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: 00:32:42 19925662 reads; of these: 19925662 (100.00%) were paired; of these: 2797283 (14.04%) aligned concordantly 0 times 14186847 (71.20%) aligned concordantly exactly 1 time 2941532 (14.76%) aligned concordantly >1 times ---- 2797283 pairs aligned concordantly 0 times; of these: 216546 (7.74%) aligned discordantly 1 time ---- 2580737 pairs aligned 0 times concordantly or discordantly; of these: 5161474 mates make up the pairs; of these: 4494187 (87.07%) aligned 0 times 464552 (9.00%) aligned exactly 1 time 202735 (3.93%) aligned >1 times 88.72% overall alignment rate Time searching: 00:32:42 Overall time: 00:32:42 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 16 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] 1810148 / 17271873 = 0.1048 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 @ Tue, 13 Aug 2019 01:06:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.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 @ Tue, 13 Aug 2019 01:06:16: #1 read tag files... INFO @ Tue, 13 Aug 2019 01:06:16: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 01:06:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.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 @ Tue, 13 Aug 2019 01:06:16: #1 read tag files... INFO @ Tue, 13 Aug 2019 01:06:16: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 01:06:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.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 @ Tue, 13 Aug 2019 01:06:17: #1 read tag files... INFO @ Tue, 13 Aug 2019 01:06:17: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 01:06:23: 1000000 INFO @ Tue, 13 Aug 2019 01:06:26: 1000000 INFO @ Tue, 13 Aug 2019 01:06:27: 1000000 INFO @ Tue, 13 Aug 2019 01:06:31: 2000000 INFO @ Tue, 13 Aug 2019 01:06:34: 2000000 INFO @ Tue, 13 Aug 2019 01:06:37: 2000000 INFO @ Tue, 13 Aug 2019 01:06:38: 3000000 INFO @ Tue, 13 Aug 2019 01:06:43: 3000000 INFO @ Tue, 13 Aug 2019 01:06:46: 4000000 INFO @ Tue, 13 Aug 2019 01:06:47: 3000000 INFO @ Tue, 13 Aug 2019 01:06:51: 4000000 INFO @ Tue, 13 Aug 2019 01:06:54: 5000000 INFO @ Tue, 13 Aug 2019 01:06:57: 4000000 INFO @ Tue, 13 Aug 2019 01:07:00: 5000000 INFO @ Tue, 13 Aug 2019 01:07:02: 6000000 INFO @ Tue, 13 Aug 2019 01:07:08: 5000000 INFO @ Tue, 13 Aug 2019 01:07:08: 6000000 INFO @ Tue, 13 Aug 2019 01:07:09: 7000000 INFO @ Tue, 13 Aug 2019 01:07:16: 7000000 INFO @ Tue, 13 Aug 2019 01:07:17: 8000000 INFO @ Tue, 13 Aug 2019 01:07:18: 6000000 INFO @ Tue, 13 Aug 2019 01:07:25: 8000000 INFO @ Tue, 13 Aug 2019 01:07:25: 9000000 INFO @ Tue, 13 Aug 2019 01:07:28: 7000000 INFO @ Tue, 13 Aug 2019 01:07:33: 10000000 INFO @ Tue, 13 Aug 2019 01:07:33: 9000000 INFO @ Tue, 13 Aug 2019 01:07:38: 8000000 INFO @ Tue, 13 Aug 2019 01:07:40: 11000000 INFO @ Tue, 13 Aug 2019 01:07:41: 10000000 INFO @ Tue, 13 Aug 2019 01:07:48: 12000000 INFO @ Tue, 13 Aug 2019 01:07:48: 9000000 INFO @ Tue, 13 Aug 2019 01:07:50: 11000000 INFO @ Tue, 13 Aug 2019 01:07:55: 13000000 INFO @ Tue, 13 Aug 2019 01:07:58: 12000000 INFO @ Tue, 13 Aug 2019 01:07:58: 10000000 INFO @ Tue, 13 Aug 2019 01:08:03: 14000000 INFO @ Tue, 13 Aug 2019 01:08:06: 13000000 INFO @ Tue, 13 Aug 2019 01:08:08: 11000000 INFO @ Tue, 13 Aug 2019 01:08:10: 15000000 INFO @ Tue, 13 Aug 2019 01:08:15: 14000000 INFO @ Tue, 13 Aug 2019 01:08:18: 16000000 INFO @ Tue, 13 Aug 2019 01:08:18: 12000000 INFO @ Tue, 13 Aug 2019 01:08:23: 15000000 INFO @ Tue, 13 Aug 2019 01:08:25: 17000000 INFO @ Tue, 13 Aug 2019 01:08:28: 13000000 INFO @ Tue, 13 Aug 2019 01:08:31: 16000000 INFO @ Tue, 13 Aug 2019 01:08:32: 18000000 INFO @ Tue, 13 Aug 2019 01:08:38: 14000000 INFO @ Tue, 13 Aug 2019 01:08:40: 17000000 INFO @ Tue, 13 Aug 2019 01:08:40: 19000000 INFO @ Tue, 13 Aug 2019 01:08:47: 20000000 INFO @ Tue, 13 Aug 2019 01:08:48: 18000000 INFO @ Tue, 13 Aug 2019 01:08:48: 15000000 INFO @ Tue, 13 Aug 2019 01:08:55: 21000000 INFO @ Tue, 13 Aug 2019 01:08:56: 19000000 INFO @ Tue, 13 Aug 2019 01:08:59: 16000000 INFO @ Tue, 13 Aug 2019 01:09:02: 22000000 INFO @ Tue, 13 Aug 2019 01:09:05: 20000000 INFO @ Tue, 13 Aug 2019 01:09:09: 17000000 INFO @ Tue, 13 Aug 2019 01:09:09: 23000000 INFO @ Tue, 13 Aug 2019 01:09:13: 21000000 INFO @ Tue, 13 Aug 2019 01:09:17: 24000000 INFO @ Tue, 13 Aug 2019 01:09:18: 18000000 INFO @ Tue, 13 Aug 2019 01:09:21: 22000000 INFO @ Tue, 13 Aug 2019 01:09:25: 25000000 INFO @ Tue, 13 Aug 2019 01:09:28: 19000000 INFO @ Tue, 13 Aug 2019 01:09:30: 23000000 INFO @ Tue, 13 Aug 2019 01:09:32: 26000000 INFO @ Tue, 13 Aug 2019 01:09:38: 20000000 INFO @ Tue, 13 Aug 2019 01:09:38: 24000000 INFO @ Tue, 13 Aug 2019 01:09:40: 27000000 INFO @ Tue, 13 Aug 2019 01:09:46: 25000000 INFO @ Tue, 13 Aug 2019 01:09:47: 28000000 INFO @ Tue, 13 Aug 2019 01:09:48: 21000000 INFO @ Tue, 13 Aug 2019 01:09:54: 29000000 INFO @ Tue, 13 Aug 2019 01:09:55: 26000000 INFO @ Tue, 13 Aug 2019 01:09:58: 22000000 INFO @ Tue, 13 Aug 2019 01:10:02: 30000000 INFO @ Tue, 13 Aug 2019 01:10:03: 27000000 INFO @ Tue, 13 Aug 2019 01:10:08: 23000000 INFO @ Tue, 13 Aug 2019 01:10:09: 31000000 INFO @ Tue, 13 Aug 2019 01:10:11: 28000000 INFO @ Tue, 13 Aug 2019 01:10:15: #1 tag size is determined as 50 bps INFO @ Tue, 13 Aug 2019 01:10:15: #1 tag size = 50 INFO @ Tue, 13 Aug 2019 01:10:15: #1 total tags in treatment: 15330936 INFO @ Tue, 13 Aug 2019 01:10:15: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 01:10:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 01:10:15: #1 tags after filtering in treatment: 13221103 INFO @ Tue, 13 Aug 2019 01:10:15: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 13 Aug 2019 01:10:15: #1 finished! INFO @ Tue, 13 Aug 2019 01:10:15: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 01:10:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 01:10:16: #2 number of paired peaks: 4 WARNING @ Tue, 13 Aug 2019 01:10:16: Too few paired peaks (4) 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 @ Tue, 13 Aug 2019 01:10:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.05_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/SRX5865776/SRX5865776.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 13 Aug 2019 01:10:18: 24000000 INFO @ Tue, 13 Aug 2019 01:10:19: 29000000 INFO @ Tue, 13 Aug 2019 01:10:28: 30000000 INFO @ Tue, 13 Aug 2019 01:10:28: 25000000 INFO @ Tue, 13 Aug 2019 01:10:36: 31000000 INFO @ Tue, 13 Aug 2019 01:10:38: 26000000 INFO @ Tue, 13 Aug 2019 01:10:42: #1 tag size is determined as 50 bps INFO @ Tue, 13 Aug 2019 01:10:42: #1 tag size = 50 INFO @ Tue, 13 Aug 2019 01:10:42: #1 total tags in treatment: 15330936 INFO @ Tue, 13 Aug 2019 01:10:42: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 01:10:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 01:10:42: #1 tags after filtering in treatment: 13221103 INFO @ Tue, 13 Aug 2019 01:10:42: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 13 Aug 2019 01:10:42: #1 finished! INFO @ Tue, 13 Aug 2019 01:10:42: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 01:10:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 01:10:44: #2 number of paired peaks: 4 WARNING @ Tue, 13 Aug 2019 01:10:44: Too few paired peaks (4) 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 @ Tue, 13 Aug 2019 01:10:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.20_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/SRX5865776/SRX5865776.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 13 Aug 2019 01:10:48: 27000000 INFO @ Tue, 13 Aug 2019 01:10:57: 28000000 INFO @ Tue, 13 Aug 2019 01:11:06: 29000000 INFO @ Tue, 13 Aug 2019 01:11:13: 30000000 INFO @ Tue, 13 Aug 2019 01:11:20: 31000000 INFO @ Tue, 13 Aug 2019 01:11:26: #1 tag size is determined as 50 bps INFO @ Tue, 13 Aug 2019 01:11:26: #1 tag size = 50 INFO @ Tue, 13 Aug 2019 01:11:26: #1 total tags in treatment: 15330936 INFO @ Tue, 13 Aug 2019 01:11:26: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 01:11:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 01:11:26: #1 tags after filtering in treatment: 13221103 INFO @ Tue, 13 Aug 2019 01:11:26: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 13 Aug 2019 01:11:26: #1 finished! INFO @ Tue, 13 Aug 2019 01:11:26: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 01:11:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 01:11:27: #2 number of paired peaks: 4 WARNING @ Tue, 13 Aug 2019 01:11:27: Too few paired peaks (4) 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 @ Tue, 13 Aug 2019 01:11:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.10_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/SRX5865776/SRX5865776.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865776/SRX5865776.10_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。