Job ID = 10608965 sra ファイルのダウンロード中... Completed: 4072155K bytes transferred in 242 seconds (137702K bits/sec), in 1 file. 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 33914541 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2741964/SRR5453798.sra Written 33914541 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:42:38 33914541 reads; of these: 33914541 (100.00%) were paired; of these: 4881503 (14.39%) aligned concordantly 0 times 26299156 (77.55%) aligned concordantly exactly 1 time 2733882 (8.06%) aligned concordantly >1 times ---- 4881503 pairs aligned concordantly 0 times; of these: 1986144 (40.69%) aligned discordantly 1 time ---- 2895359 pairs aligned 0 times concordantly or discordantly; of these: 5790718 mates make up the pairs; of these: 3935897 (67.97%) aligned 0 times 1285301 (22.20%) aligned exactly 1 time 569520 (9.84%) aligned >1 times 94.20% overall alignment rate Time searching: 00:42:38 Overall time: 00:42:38 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 28 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] 552513 / 30847758 = 0.0179 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 @ Fri, 04 May 2018 00:04:38: # Command line: callpeak -t SRX2741964.bam -f BAM -g 12100000 -n SRX2741964.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2741964.05 # format = BAM # ChIP-seq file = ['SRX2741964.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 @ Fri, 04 May 2018 00:04:38: # Command line: callpeak -t SRX2741964.bam -f BAM -g 12100000 -n SRX2741964.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2741964.20 # format = BAM # ChIP-seq file = ['SRX2741964.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 @ Fri, 04 May 2018 00:04:38: # Command line: callpeak -t SRX2741964.bam -f BAM -g 12100000 -n SRX2741964.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2741964.10 # format = BAM # ChIP-seq file = ['SRX2741964.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 @ Fri, 04 May 2018 00:04:38: #1 read tag files... INFO @ Fri, 04 May 2018 00:04:38: #1 read tag files... INFO @ Fri, 04 May 2018 00:04:38: #1 read tag files... INFO @ Fri, 04 May 2018 00:04:38: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:04:38: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:04:38: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:04:45: 1000000 INFO @ Fri, 04 May 2018 00:04:45: 1000000 INFO @ Fri, 04 May 2018 00:04:45: 1000000 INFO @ Fri, 04 May 2018 00:04:52: 2000000 INFO @ Fri, 04 May 2018 00:04:52: 2000000 INFO @ Fri, 04 May 2018 00:04:52: 2000000 INFO @ Fri, 04 May 2018 00:04:59: 3000000 INFO @ Fri, 04 May 2018 00:05:00: 3000000 INFO @ Fri, 04 May 2018 00:05:00: 3000000 INFO @ Fri, 04 May 2018 00:05:07: 4000000 INFO @ Fri, 04 May 2018 00:05:07: 4000000 INFO @ Fri, 04 May 2018 00:05:07: 4000000 INFO @ Fri, 04 May 2018 00:05:14: 5000000 INFO @ Fri, 04 May 2018 00:05:14: 5000000 INFO @ Fri, 04 May 2018 00:05:15: 5000000 INFO @ Fri, 04 May 2018 00:05:21: 6000000 INFO @ Fri, 04 May 2018 00:05:21: 6000000 INFO @ Fri, 04 May 2018 00:05:22: 6000000 INFO @ Fri, 04 May 2018 00:05:28: 7000000 INFO @ Fri, 04 May 2018 00:05:28: 7000000 INFO @ Fri, 04 May 2018 00:05:29: 7000000 INFO @ Fri, 04 May 2018 00:05:36: 8000000 INFO @ Fri, 04 May 2018 00:05:36: 8000000 INFO @ Fri, 04 May 2018 00:05:36: 8000000 INFO @ Fri, 04 May 2018 00:05:43: 9000000 INFO @ Fri, 04 May 2018 00:05:43: 9000000 INFO @ Fri, 04 May 2018 00:05:44: 9000000 INFO @ Fri, 04 May 2018 00:05:50: 10000000 INFO @ Fri, 04 May 2018 00:05:50: 10000000 INFO @ Fri, 04 May 2018 00:05:51: 10000000 INFO @ Fri, 04 May 2018 00:05:57: 11000000 INFO @ Fri, 04 May 2018 00:05:57: 11000000 INFO @ Fri, 04 May 2018 00:05:58: 11000000 INFO @ Fri, 04 May 2018 00:06:04: 12000000 INFO @ Fri, 04 May 2018 00:06:04: 12000000 INFO @ Fri, 04 May 2018 00:06:05: 12000000 INFO @ Fri, 04 May 2018 00:06:11: 13000000 INFO @ Fri, 04 May 2018 00:06:12: 13000000 INFO @ Fri, 04 May 2018 00:06:13: 13000000 INFO @ Fri, 04 May 2018 00:06:17: 14000000 INFO @ Fri, 04 May 2018 00:06:19: 14000000 INFO @ Fri, 04 May 2018 00:06:20: 14000000 INFO @ Fri, 04 May 2018 00:06:24: 15000000 INFO @ Fri, 04 May 2018 00:06:26: 15000000 INFO @ Fri, 04 May 2018 00:06:27: 15000000 INFO @ Fri, 04 May 2018 00:06:31: 16000000 INFO @ Fri, 04 May 2018 00:06:33: 16000000 INFO @ Fri, 04 May 2018 00:06:34: 16000000 INFO @ Fri, 04 May 2018 00:06:38: 17000000 INFO @ Fri, 04 May 2018 00:06:40: 17000000 INFO @ Fri, 04 May 2018 00:06:42: 17000000 INFO @ Fri, 04 May 2018 00:06:45: 18000000 INFO @ Fri, 04 May 2018 00:06:47: 18000000 INFO @ Fri, 04 May 2018 00:06:49: 18000000 INFO @ Fri, 04 May 2018 00:06:52: 19000000 INFO @ Fri, 04 May 2018 00:06:54: 19000000 INFO @ Fri, 04 May 2018 00:06:56: 19000000 INFO @ Fri, 04 May 2018 00:06:59: 20000000 INFO @ Fri, 04 May 2018 00:07:01: 20000000 INFO @ Fri, 04 May 2018 00:07:03: 20000000 INFO @ Fri, 04 May 2018 00:07:06: 21000000 INFO @ Fri, 04 May 2018 00:07:09: 21000000 INFO @ Fri, 04 May 2018 00:07:11: 21000000 INFO @ Fri, 04 May 2018 00:07:13: 22000000 INFO @ Fri, 04 May 2018 00:07:16: 22000000 INFO @ Fri, 04 May 2018 00:07:18: 22000000 INFO @ Fri, 04 May 2018 00:07:20: 23000000 INFO @ Fri, 04 May 2018 00:07:23: 23000000 INFO @ Fri, 04 May 2018 00:07:25: 23000000 INFO @ Fri, 04 May 2018 00:07:27: 24000000 INFO @ Fri, 04 May 2018 00:07:30: 24000000 INFO @ Fri, 04 May 2018 00:07:32: 24000000 INFO @ Fri, 04 May 2018 00:07:34: 25000000 INFO @ Fri, 04 May 2018 00:07:37: 25000000 INFO @ Fri, 04 May 2018 00:07:39: 25000000 INFO @ Fri, 04 May 2018 00:07:41: 26000000 INFO @ Fri, 04 May 2018 00:07:44: 26000000 INFO @ Fri, 04 May 2018 00:07:47: 26000000 INFO @ Fri, 04 May 2018 00:07:47: 27000000 INFO @ Fri, 04 May 2018 00:07:52: 27000000 INFO @ Fri, 04 May 2018 00:07:54: 27000000 INFO @ Fri, 04 May 2018 00:07:54: 28000000 INFO @ Fri, 04 May 2018 00:07:59: 28000000 INFO @ Fri, 04 May 2018 00:08:01: 29000000 INFO @ Fri, 04 May 2018 00:08:01: 28000000 INFO @ Fri, 04 May 2018 00:08:06: 29000000 INFO @ Fri, 04 May 2018 00:08:08: 30000000 INFO @ Fri, 04 May 2018 00:08:09: 29000000 INFO @ Fri, 04 May 2018 00:08:13: 30000000 INFO @ Fri, 04 May 2018 00:08:15: 31000000 INFO @ Fri, 04 May 2018 00:08:16: 30000000 INFO @ Fri, 04 May 2018 00:08:21: 31000000 INFO @ Fri, 04 May 2018 00:08:22: 32000000 INFO @ Fri, 04 May 2018 00:08:24: 31000000 INFO @ Fri, 04 May 2018 00:08:28: 32000000 INFO @ Fri, 04 May 2018 00:08:29: 33000000 INFO @ Fri, 04 May 2018 00:08:31: 32000000 INFO @ Fri, 04 May 2018 00:08:35: 33000000 INFO @ Fri, 04 May 2018 00:08:35: 34000000 INFO @ Fri, 04 May 2018 00:08:38: 33000000 INFO @ Fri, 04 May 2018 00:08:42: 34000000 INFO @ Fri, 04 May 2018 00:08:42: 35000000 INFO @ Fri, 04 May 2018 00:08:45: 34000000 INFO @ Fri, 04 May 2018 00:08:49: 36000000 INFO @ Fri, 04 May 2018 00:08:50: 35000000 INFO @ Fri, 04 May 2018 00:08:53: 35000000 INFO @ Fri, 04 May 2018 00:08:56: 37000000 INFO @ Fri, 04 May 2018 00:08:57: 36000000 INFO @ Fri, 04 May 2018 00:09:00: 36000000 INFO @ Fri, 04 May 2018 00:09:03: 38000000 INFO @ Fri, 04 May 2018 00:09:04: 37000000 INFO @ Fri, 04 May 2018 00:09:08: 37000000 INFO @ Fri, 04 May 2018 00:09:10: 39000000 INFO @ Fri, 04 May 2018 00:09:11: 38000000 INFO @ Fri, 04 May 2018 00:09:15: 38000000 INFO @ Fri, 04 May 2018 00:09:17: 40000000 INFO @ Fri, 04 May 2018 00:09:19: 39000000 INFO @ Fri, 04 May 2018 00:09:22: 39000000 INFO @ Fri, 04 May 2018 00:09:24: 41000000 INFO @ Fri, 04 May 2018 00:09:26: 40000000 INFO @ Fri, 04 May 2018 00:09:30: 40000000 INFO @ Fri, 04 May 2018 00:09:31: 42000000 INFO @ Fri, 04 May 2018 00:09:33: 41000000 INFO @ Fri, 04 May 2018 00:09:37: 41000000 INFO @ Fri, 04 May 2018 00:09:38: 43000000 INFO @ Fri, 04 May 2018 00:09:41: 42000000 INFO @ Fri, 04 May 2018 00:09:44: 42000000 INFO @ Fri, 04 May 2018 00:09:45: 44000000 INFO @ Fri, 04 May 2018 00:09:48: 43000000 INFO @ Fri, 04 May 2018 00:09:51: 45000000 INFO @ Fri, 04 May 2018 00:09:52: 43000000 INFO @ Fri, 04 May 2018 00:09:55: 44000000 INFO @ Fri, 04 May 2018 00:09:58: 46000000 INFO @ Fri, 04 May 2018 00:09:59: 44000000 INFO @ Fri, 04 May 2018 00:10:02: 45000000 INFO @ Fri, 04 May 2018 00:10:05: 47000000 INFO @ Fri, 04 May 2018 00:10:07: 45000000 INFO @ Fri, 04 May 2018 00:10:10: 46000000 INFO @ Fri, 04 May 2018 00:10:12: 48000000 INFO @ Fri, 04 May 2018 00:10:14: 46000000 INFO @ Fri, 04 May 2018 00:10:17: 47000000 INFO @ Fri, 04 May 2018 00:10:19: 49000000 INFO @ Fri, 04 May 2018 00:10:21: 47000000 INFO @ Fri, 04 May 2018 00:10:24: 48000000 INFO @ Fri, 04 May 2018 00:10:26: 50000000 INFO @ Fri, 04 May 2018 00:10:29: 48000000 INFO @ Fri, 04 May 2018 00:10:31: 49000000 INFO @ Fri, 04 May 2018 00:10:33: 51000000 INFO @ Fri, 04 May 2018 00:10:36: 49000000 INFO @ Fri, 04 May 2018 00:10:39: 50000000 INFO @ Fri, 04 May 2018 00:10:40: 52000000 INFO @ Fri, 04 May 2018 00:10:43: 50000000 INFO @ Fri, 04 May 2018 00:10:46: 51000000 INFO @ Fri, 04 May 2018 00:10:47: 53000000 INFO @ Fri, 04 May 2018 00:10:50: 51000000 INFO @ Fri, 04 May 2018 00:10:53: 52000000 INFO @ Fri, 04 May 2018 00:10:54: 54000000 INFO @ Fri, 04 May 2018 00:10:58: 52000000 INFO @ Fri, 04 May 2018 00:11:00: 53000000 INFO @ Fri, 04 May 2018 00:11:01: 55000000 INFO @ Fri, 04 May 2018 00:11:05: 53000000 INFO @ Fri, 04 May 2018 00:11:07: 54000000 INFO @ Fri, 04 May 2018 00:11:08: 56000000 INFO @ Fri, 04 May 2018 00:11:12: 54000000 INFO @ Fri, 04 May 2018 00:11:14: 55000000 INFO @ Fri, 04 May 2018 00:11:15: 57000000 INFO @ Fri, 04 May 2018 00:11:19: 55000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 04 May 2018 00:11:21: 56000000 INFO @ Fri, 04 May 2018 00:11:22: 58000000 INFO @ Fri, 04 May 2018 00:11:26: 56000000 INFO @ Fri, 04 May 2018 00:11:28: 57000000 INFO @ Fri, 04 May 2018 00:11:29: 59000000 INFO @ Fri, 04 May 2018 00:11:34: 57000000 INFO @ Fri, 04 May 2018 00:11:35: 58000000 INFO @ Fri, 04 May 2018 00:11:36: 60000000 INFO @ Fri, 04 May 2018 00:11:41: 58000000 INFO @ Fri, 04 May 2018 00:11:42: 59000000 BigWig に変換しました。 INFO @ Fri, 04 May 2018 00:11:43: 61000000 INFO @ Fri, 04 May 2018 00:11:48: 59000000 INFO @ Fri, 04 May 2018 00:11:49: 60000000 INFO @ Fri, 04 May 2018 00:11:50: 62000000 INFO @ Fri, 04 May 2018 00:11:55: 60000000 INFO @ Fri, 04 May 2018 00:11:56: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:11:56: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:11:56: #1 total tags in treatment: 28494650 INFO @ Fri, 04 May 2018 00:11:56: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:11:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:11:57: 61000000 INFO @ Fri, 04 May 2018 00:11:57: #1 tags after filtering in treatment: 15536846 INFO @ Fri, 04 May 2018 00:11:57: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 04 May 2018 00:11:57: #1 finished! INFO @ Fri, 04 May 2018 00:11:57: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:11:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:11:58: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:11:58: 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 @ Fri, 04 May 2018 00:11:58: Process for pairing-model is terminated! cat: SRX2741964.10_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 `SRX2741964.10_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 `SRX2741964.10_*.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 `SRX2741964.10_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 @ Fri, 04 May 2018 00:12:03: 61000000 INFO @ Fri, 04 May 2018 00:12:04: 62000000 INFO @ Fri, 04 May 2018 00:12:10: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:12:10: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:12:10: #1 total tags in treatment: 28494650 INFO @ Fri, 04 May 2018 00:12:10: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:12:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:12:10: 62000000 INFO @ Fri, 04 May 2018 00:12:10: #1 tags after filtering in treatment: 15536846 INFO @ Fri, 04 May 2018 00:12:10: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 04 May 2018 00:12:10: #1 finished! INFO @ Fri, 04 May 2018 00:12:10: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:12:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:12:11: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:12:11: 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 @ Fri, 04 May 2018 00:12:11: Process for pairing-model is terminated! cat: SRX2741964.05_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2741964.05_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 `SRX2741964.05_*.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 `SRX2741964.05_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 INFO @ Fri, 04 May 2018 00:12:16: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:12:16: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:12:16: #1 total tags in treatment: 28494650 INFO @ Fri, 04 May 2018 00:12:16: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:12:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:12:16: #1 tags after filtering in treatment: 15536846 INFO @ Fri, 04 May 2018 00:12:16: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 04 May 2018 00:12:16: #1 finished! INFO @ Fri, 04 May 2018 00:12:16: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:12:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:12:17: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:12:17: 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 @ Fri, 04 May 2018 00:12:17: Process for pairing-model is terminated! cat: SRX2741964.20_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 `SRX2741964.20_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 `SRX2741964.20_*.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 `SRX2741964.20_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