Job ID = 9161801 sra ファイルのダウンロード中... Completed: 1497317K bytes transferred in 15 seconds (793455K bits/sec), in 1 file, 2 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 43617432 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1054418/SRR2057639.sra Written 43617432 spots total rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:24:51 43617432 reads; of these: 43617432 (100.00%) were paired; of these: 3676286 (8.43%) aligned concordantly 0 times 29907809 (68.57%) aligned concordantly exactly 1 time 10033337 (23.00%) aligned concordantly >1 times ---- 3676286 pairs aligned concordantly 0 times; of these: 1335292 (36.32%) aligned discordantly 1 time ---- 2340994 pairs aligned 0 times concordantly or discordantly; of these: 4681988 mates make up the pairs; of these: 2750244 (58.74%) aligned 0 times 935820 (19.99%) aligned exactly 1 time 995924 (21.27%) aligned >1 times 96.85% overall alignment rate Time searching: 00:24:51 Overall time: 00:24:51 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 24 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] 12150513 / 41146809 = 0.2953 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 @ Wed, 28 Jun 2017 05:20:33: # Command line: callpeak -t SRX1054418.bam -f BAM -g 12100000 -n SRX1054418.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1054418.05 # format = BAM # ChIP-seq file = ['SRX1054418.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, 28 Jun 2017 05:20:33: # Command line: callpeak -t SRX1054418.bam -f BAM -g 12100000 -n SRX1054418.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1054418.10 # format = BAM # ChIP-seq file = ['SRX1054418.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, 28 Jun 2017 05:20:33: # Command line: callpeak -t SRX1054418.bam -f BAM -g 12100000 -n SRX1054418.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1054418.20 # format = BAM # ChIP-seq file = ['SRX1054418.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, 28 Jun 2017 05:20:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:20:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:20:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:20:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:20:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:20:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:20:38: 1000000 INFO @ Wed, 28 Jun 2017 05:20:38: 1000000 INFO @ Wed, 28 Jun 2017 05:20:38: 1000000 INFO @ Wed, 28 Jun 2017 05:20:42: 2000000 INFO @ Wed, 28 Jun 2017 05:20:42: 2000000 INFO @ Wed, 28 Jun 2017 05:20:42: 2000000 INFO @ Wed, 28 Jun 2017 05:20:47: 3000000 INFO @ Wed, 28 Jun 2017 05:20:47: 3000000 INFO @ Wed, 28 Jun 2017 05:20:47: 3000000 INFO @ Wed, 28 Jun 2017 05:20:52: 4000000 INFO @ Wed, 28 Jun 2017 05:20:52: 4000000 INFO @ Wed, 28 Jun 2017 05:20:52: 4000000 INFO @ Wed, 28 Jun 2017 05:20:56: 5000000 INFO @ Wed, 28 Jun 2017 05:20:56: 5000000 INFO @ Wed, 28 Jun 2017 05:20:57: 5000000 INFO @ Wed, 28 Jun 2017 05:21:01: 6000000 INFO @ Wed, 28 Jun 2017 05:21:01: 6000000 INFO @ Wed, 28 Jun 2017 05:21:01: 6000000 INFO @ Wed, 28 Jun 2017 05:21:06: 7000000 INFO @ Wed, 28 Jun 2017 05:21:06: 7000000 INFO @ Wed, 28 Jun 2017 05:21:06: 7000000 INFO @ Wed, 28 Jun 2017 05:21:11: 8000000 INFO @ Wed, 28 Jun 2017 05:21:11: 8000000 INFO @ Wed, 28 Jun 2017 05:21:11: 8000000 INFO @ Wed, 28 Jun 2017 05:21:16: 9000000 INFO @ Wed, 28 Jun 2017 05:21:16: 9000000 INFO @ Wed, 28 Jun 2017 05:21:16: 9000000 INFO @ Wed, 28 Jun 2017 05:21:20: 10000000 INFO @ Wed, 28 Jun 2017 05:21:21: 10000000 INFO @ Wed, 28 Jun 2017 05:21:22: 10000000 INFO @ Wed, 28 Jun 2017 05:21:25: 11000000 INFO @ Wed, 28 Jun 2017 05:21:26: 11000000 INFO @ Wed, 28 Jun 2017 05:21:27: 11000000 INFO @ Wed, 28 Jun 2017 05:21:30: 12000000 INFO @ Wed, 28 Jun 2017 05:21:31: 12000000 INFO @ Wed, 28 Jun 2017 05:21:32: 12000000 INFO @ Wed, 28 Jun 2017 05:21:34: 13000000 INFO @ Wed, 28 Jun 2017 05:21:36: 13000000 INFO @ Wed, 28 Jun 2017 05:21:37: 13000000 INFO @ Wed, 28 Jun 2017 05:21:39: 14000000 INFO @ Wed, 28 Jun 2017 05:21:41: 14000000 INFO @ Wed, 28 Jun 2017 05:21:42: 14000000 INFO @ Wed, 28 Jun 2017 05:21:44: 15000000 INFO @ Wed, 28 Jun 2017 05:21:46: 15000000 INFO @ Wed, 28 Jun 2017 05:21:48: 15000000 INFO @ Wed, 28 Jun 2017 05:21:48: 16000000 INFO @ Wed, 28 Jun 2017 05:21:52: 16000000 INFO @ Wed, 28 Jun 2017 05:21:53: 16000000 INFO @ Wed, 28 Jun 2017 05:21:53: 17000000 INFO @ Wed, 28 Jun 2017 05:21:57: 17000000 INFO @ Wed, 28 Jun 2017 05:21:58: 18000000 INFO @ Wed, 28 Jun 2017 05:21:58: 17000000 INFO @ Wed, 28 Jun 2017 05:22:02: 19000000 INFO @ Wed, 28 Jun 2017 05:22:02: 18000000 INFO @ Wed, 28 Jun 2017 05:22:03: 18000000 INFO @ Wed, 28 Jun 2017 05:22:07: 20000000 INFO @ Wed, 28 Jun 2017 05:22:07: 19000000 INFO @ Wed, 28 Jun 2017 05:22:09: 19000000 INFO @ Wed, 28 Jun 2017 05:22:12: 21000000 INFO @ Wed, 28 Jun 2017 05:22:13: 20000000 INFO @ Wed, 28 Jun 2017 05:22:14: 20000000 INFO @ Wed, 28 Jun 2017 05:22:16: 22000000 INFO @ Wed, 28 Jun 2017 05:22:18: 21000000 INFO @ Wed, 28 Jun 2017 05:22:19: 21000000 INFO @ Wed, 28 Jun 2017 05:22:21: 23000000 INFO @ Wed, 28 Jun 2017 05:22:23: 22000000 INFO @ Wed, 28 Jun 2017 05:22:25: 22000000 INFO @ Wed, 28 Jun 2017 05:22:25: 24000000 INFO @ Wed, 28 Jun 2017 05:22:28: 23000000 INFO @ Wed, 28 Jun 2017 05:22:30: 25000000 INFO @ Wed, 28 Jun 2017 05:22:30: 23000000 INFO @ Wed, 28 Jun 2017 05:22:34: 24000000 INFO @ Wed, 28 Jun 2017 05:22:35: 26000000 INFO @ Wed, 28 Jun 2017 05:22:35: 24000000 INFO @ Wed, 28 Jun 2017 05:22:39: 25000000 INFO @ Wed, 28 Jun 2017 05:22:39: 27000000 INFO @ Wed, 28 Jun 2017 05:22:41: 25000000 INFO @ Wed, 28 Jun 2017 05:22:44: 28000000 INFO @ Wed, 28 Jun 2017 05:22:44: 26000000 INFO @ Wed, 28 Jun 2017 05:22:46: 26000000 INFO @ Wed, 28 Jun 2017 05:22:49: 29000000 INFO @ Wed, 28 Jun 2017 05:22:49: 27000000 INFO @ Wed, 28 Jun 2017 05:22:51: 27000000 INFO @ Wed, 28 Jun 2017 05:22:53: 30000000 INFO @ Wed, 28 Jun 2017 05:22:55: 28000000 INFO @ Wed, 28 Jun 2017 05:22:57: 28000000 INFO @ Wed, 28 Jun 2017 05:22:58: 31000000 INFO @ Wed, 28 Jun 2017 05:23:00: 29000000 INFO @ Wed, 28 Jun 2017 05:23:02: 29000000 INFO @ Wed, 28 Jun 2017 05:23:02: 32000000 INFO @ Wed, 28 Jun 2017 05:23:05: 30000000 INFO @ Wed, 28 Jun 2017 05:23:07: 33000000 INFO @ Wed, 28 Jun 2017 05:23:07: 30000000 INFO @ Wed, 28 Jun 2017 05:23:10: 31000000 INFO @ Wed, 28 Jun 2017 05:23:12: 34000000 INFO @ Wed, 28 Jun 2017 05:23:12: 31000000 INFO @ Wed, 28 Jun 2017 05:23:15: 32000000 INFO @ Wed, 28 Jun 2017 05:23:16: 35000000 INFO @ Wed, 28 Jun 2017 05:23:18: 32000000 INFO @ Wed, 28 Jun 2017 05:23:20: 33000000 INFO @ Wed, 28 Jun 2017 05:23:21: 36000000 INFO @ Wed, 28 Jun 2017 05:23:23: 33000000 INFO @ Wed, 28 Jun 2017 05:23:25: 37000000 INFO @ Wed, 28 Jun 2017 05:23:26: 34000000 INFO @ Wed, 28 Jun 2017 05:23:28: 34000000 INFO @ Wed, 28 Jun 2017 05:23:30: 38000000 INFO @ Wed, 28 Jun 2017 05:23:31: 35000000 INFO @ Wed, 28 Jun 2017 05:23:33: 35000000 INFO @ Wed, 28 Jun 2017 05:23:34: 39000000 INFO @ Wed, 28 Jun 2017 05:23:36: 36000000 INFO @ Wed, 28 Jun 2017 05:23:38: 36000000 INFO @ Wed, 28 Jun 2017 05:23:39: 40000000 INFO @ Wed, 28 Jun 2017 05:23:41: 37000000 INFO @ Wed, 28 Jun 2017 05:23:43: 41000000 INFO @ Wed, 28 Jun 2017 05:23:44: 37000000 INFO @ Wed, 28 Jun 2017 05:23:46: 38000000 INFO @ Wed, 28 Jun 2017 05:23:48: 42000000 INFO @ Wed, 28 Jun 2017 05:23:49: 38000000 INFO @ Wed, 28 Jun 2017 05:23:51: 39000000 INFO @ Wed, 28 Jun 2017 05:23:53: 43000000 INFO @ Wed, 28 Jun 2017 05:23:53: 39000000 INFO @ Wed, 28 Jun 2017 05:23:56: 40000000 INFO @ Wed, 28 Jun 2017 05:23:57: 44000000 INFO @ Wed, 28 Jun 2017 05:23:58: 40000000 INFO @ Wed, 28 Jun 2017 05:24:01: 41000000 INFO @ Wed, 28 Jun 2017 05:24:02: 45000000 INFO @ Wed, 28 Jun 2017 05:24:04: 41000000 INFO @ Wed, 28 Jun 2017 05:24:06: 42000000 INFO @ Wed, 28 Jun 2017 05:24:06: 46000000 INFO @ Wed, 28 Jun 2017 05:24:09: 42000000 INFO @ Wed, 28 Jun 2017 05:24:11: 43000000 INFO @ Wed, 28 Jun 2017 05:24:11: 47000000 INFO @ Wed, 28 Jun 2017 05:24:14: 43000000 INFO @ Wed, 28 Jun 2017 05:24:16: 48000000 INFO @ Wed, 28 Jun 2017 05:24:16: 44000000 INFO @ Wed, 28 Jun 2017 05:24:19: 44000000 INFO @ Wed, 28 Jun 2017 05:24:20: 49000000 INFO @ Wed, 28 Jun 2017 05:24:21: 45000000 INFO @ Wed, 28 Jun 2017 05:24:24: 45000000 INFO @ Wed, 28 Jun 2017 05:24:25: 50000000 INFO @ Wed, 28 Jun 2017 05:24:26: 46000000 INFO @ Wed, 28 Jun 2017 05:24:30: 51000000 INFO @ Wed, 28 Jun 2017 05:24:30: 46000000 INFO @ Wed, 28 Jun 2017 05:24:31: 47000000 INFO @ Wed, 28 Jun 2017 05:24:34: 52000000 INFO @ Wed, 28 Jun 2017 05:24:35: 47000000 INFO @ Wed, 28 Jun 2017 05:24:37: 48000000 INFO @ Wed, 28 Jun 2017 05:24:39: 53000000 INFO @ Wed, 28 Jun 2017 05:24:40: 48000000 INFO @ Wed, 28 Jun 2017 05:24:42: 49000000 INFO @ Wed, 28 Jun 2017 05:24:43: 54000000 INFO @ Wed, 28 Jun 2017 05:24:45: 49000000 INFO @ Wed, 28 Jun 2017 05:24:47: 50000000 INFO @ Wed, 28 Jun 2017 05:24:48: 55000000 INFO @ Wed, 28 Jun 2017 05:24:50: 50000000 INFO @ Wed, 28 Jun 2017 05:24:52: 51000000 INFO @ Wed, 28 Jun 2017 05:24:53: 56000000 INFO @ Wed, 28 Jun 2017 05:24:56: 51000000 INFO @ Wed, 28 Jun 2017 05:24:57: 52000000 INFO @ Wed, 28 Jun 2017 05:24:57: 57000000 INFO @ Wed, 28 Jun 2017 05:25:01: 52000000 INFO @ Wed, 28 Jun 2017 05:25:02: 58000000 INFO @ Wed, 28 Jun 2017 05:25:02: 53000000 INFO @ Wed, 28 Jun 2017 05:25:06: 53000000 INFO @ Wed, 28 Jun 2017 05:25:07: 59000000 INFO @ Wed, 28 Jun 2017 05:25:07: 54000000 INFO @ Wed, 28 Jun 2017 05:25:11: 54000000 INFO @ Wed, 28 Jun 2017 05:25:11: 60000000 INFO @ Wed, 28 Jun 2017 05:25:12: 55000000 INFO @ Wed, 28 Jun 2017 05:25:12: #1 tag size is determined as 24 bps INFO @ Wed, 28 Jun 2017 05:25:12: #1 tag size = 24 INFO @ Wed, 28 Jun 2017 05:25:12: #1 total tags in treatment: 27820816 INFO @ Wed, 28 Jun 2017 05:25:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:25:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:25:13: #1 tags after filtering in treatment: 8532744 INFO @ Wed, 28 Jun 2017 05:25:13: #1 Redundant rate of treatment: 0.69 INFO @ Wed, 28 Jun 2017 05:25:13: #1 finished! INFO @ Wed, 28 Jun 2017 05:25:13: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:25:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:25:14: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:25:14: 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, 28 Jun 2017 05:25:14: Process for pairing-model is terminated! cat: SRX1054418.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1054418.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1054418.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1054418.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 05:25:16: 55000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 05:25:17: 56000000 INFO @ Wed, 28 Jun 2017 05:25:21: 56000000 INFO @ Wed, 28 Jun 2017 05:25:22: 57000000 INFO @ Wed, 28 Jun 2017 05:25:26: 57000000 INFO @ Wed, 28 Jun 2017 05:25:27: 58000000 INFO @ Wed, 28 Jun 2017 05:25:31: 58000000 INFO @ Wed, 28 Jun 2017 05:25:32: 59000000 INFO @ Wed, 28 Jun 2017 05:25:36: 59000000 INFO @ Wed, 28 Jun 2017 05:25:37: 60000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 05:25:38: #1 tag size is determined as 24 bps INFO @ Wed, 28 Jun 2017 05:25:38: #1 tag size = 24 INFO @ Wed, 28 Jun 2017 05:25:38: #1 total tags in treatment: 27820816 INFO @ Wed, 28 Jun 2017 05:25:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:25:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:25:39: #1 tags after filtering in treatment: 8532744 INFO @ Wed, 28 Jun 2017 05:25:39: #1 Redundant rate of treatment: 0.69 INFO @ Wed, 28 Jun 2017 05:25:39: #1 finished! INFO @ Wed, 28 Jun 2017 05:25:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:25:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:25:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:25:40: 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, 28 Jun 2017 05:25:40: Process for pairing-model is terminated! cat: SRX1054418.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1054418.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1054418.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1054418.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 05:25:41: 60000000 INFO @ Wed, 28 Jun 2017 05:25:42: #1 tag size is determined as 24 bps INFO @ Wed, 28 Jun 2017 05:25:42: #1 tag size = 24 INFO @ Wed, 28 Jun 2017 05:25:42: #1 total tags in treatment: 27820816 INFO @ Wed, 28 Jun 2017 05:25:42: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:25:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:25:43: #1 tags after filtering in treatment: 8532744 INFO @ Wed, 28 Jun 2017 05:25:43: #1 Redundant rate of treatment: 0.69 INFO @ Wed, 28 Jun 2017 05:25:43: #1 finished! INFO @ Wed, 28 Jun 2017 05:25:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:25:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:25:43: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:25:43: 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, 28 Jun 2017 05:25:43: Process for pairing-model is terminated! cat: SRX1054418.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1054418.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1054418.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1054418.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling