Job ID = 9160180 sra ファイルのダウンロード中... Completed: 1546379K bytes transferred in 113 seconds (111610K bits/sec), in 2 files, 3 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 15007547 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831027/SRR5572345.sra Written 15007547 spots total Written 19597647 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831027/SRR5572346.sra Written 19597647 spots total 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: 00:26:04 34605194 reads; of these: 34605194 (100.00%) were paired; of these: 3709937 (10.72%) aligned concordantly 0 times 27312125 (78.92%) aligned concordantly exactly 1 time 3583132 (10.35%) aligned concordantly >1 times ---- 3709937 pairs aligned concordantly 0 times; of these: 1066155 (28.74%) aligned discordantly 1 time ---- 2643782 pairs aligned 0 times concordantly or discordantly; of these: 5287564 mates make up the pairs; of these: 3891636 (73.60%) aligned 0 times 940288 (17.78%) aligned exactly 1 time 455640 (8.62%) aligned >1 times 94.38% overall alignment rate Time searching: 00:26:04 Overall time: 00:26:04 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] 1271354 / 31502472 = 0.0404 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 02:46:12: # Command line: callpeak -t SRX2831027.bam -f BAM -g 12100000 -n SRX2831027.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2831027.20 # format = BAM # ChIP-seq file = ['SRX2831027.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 02:46:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:46:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:46:12: # Command line: callpeak -t SRX2831027.bam -f BAM -g 12100000 -n SRX2831027.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2831027.05 # format = BAM # ChIP-seq file = ['SRX2831027.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 02:46:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:46:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:46:12: # Command line: callpeak -t SRX2831027.bam -f BAM -g 12100000 -n SRX2831027.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2831027.10 # format = BAM # ChIP-seq file = ['SRX2831027.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 02:46:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:46:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:46:17: 1000000 INFO @ Wed, 28 Jun 2017 02:46:17: 1000000 INFO @ Wed, 28 Jun 2017 02:46:17: 1000000 INFO @ Wed, 28 Jun 2017 02:46:22: 2000000 INFO @ Wed, 28 Jun 2017 02:46:22: 2000000 INFO @ Wed, 28 Jun 2017 02:46:22: 2000000 INFO @ Wed, 28 Jun 2017 02:46:27: 3000000 INFO @ Wed, 28 Jun 2017 02:46:28: 3000000 INFO @ Wed, 28 Jun 2017 02:46:28: 3000000 INFO @ Wed, 28 Jun 2017 02:46:32: 4000000 INFO @ Wed, 28 Jun 2017 02:46:33: 4000000 INFO @ Wed, 28 Jun 2017 02:46:33: 4000000 INFO @ Wed, 28 Jun 2017 02:46:37: 5000000 INFO @ Wed, 28 Jun 2017 02:46:38: 5000000 INFO @ Wed, 28 Jun 2017 02:46:38: 5000000 INFO @ Wed, 28 Jun 2017 02:46:43: 6000000 INFO @ Wed, 28 Jun 2017 02:46:44: 6000000 INFO @ Wed, 28 Jun 2017 02:46:44: 6000000 INFO @ Wed, 28 Jun 2017 02:46:48: 7000000 INFO @ Wed, 28 Jun 2017 02:46:49: 7000000 INFO @ Wed, 28 Jun 2017 02:46:50: 7000000 INFO @ Wed, 28 Jun 2017 02:46:53: 8000000 INFO @ Wed, 28 Jun 2017 02:46:55: 8000000 INFO @ Wed, 28 Jun 2017 02:46:55: 8000000 INFO @ Wed, 28 Jun 2017 02:46:58: 9000000 INFO @ Wed, 28 Jun 2017 02:47:00: 9000000 INFO @ Wed, 28 Jun 2017 02:47:01: 9000000 INFO @ Wed, 28 Jun 2017 02:47:03: 10000000 INFO @ Wed, 28 Jun 2017 02:47:06: 10000000 INFO @ Wed, 28 Jun 2017 02:47:07: 10000000 INFO @ Wed, 28 Jun 2017 02:47:08: 11000000 INFO @ Wed, 28 Jun 2017 02:47:12: 11000000 INFO @ Wed, 28 Jun 2017 02:47:13: 11000000 INFO @ Wed, 28 Jun 2017 02:47:13: 12000000 INFO @ Wed, 28 Jun 2017 02:47:17: 12000000 INFO @ Wed, 28 Jun 2017 02:47:18: 13000000 INFO @ Wed, 28 Jun 2017 02:47:19: 12000000 INFO @ Wed, 28 Jun 2017 02:47:23: 13000000 INFO @ Wed, 28 Jun 2017 02:47:23: 14000000 INFO @ Wed, 28 Jun 2017 02:47:25: 13000000 INFO @ Wed, 28 Jun 2017 02:47:28: 15000000 INFO @ Wed, 28 Jun 2017 02:47:29: 14000000 INFO @ Wed, 28 Jun 2017 02:47:31: 14000000 INFO @ Wed, 28 Jun 2017 02:47:35: 16000000 INFO @ Wed, 28 Jun 2017 02:47:36: 15000000 INFO @ Wed, 28 Jun 2017 02:47:38: 15000000 INFO @ Wed, 28 Jun 2017 02:47:41: 17000000 INFO @ Wed, 28 Jun 2017 02:47:42: 16000000 INFO @ Wed, 28 Jun 2017 02:47:45: 16000000 INFO @ Wed, 28 Jun 2017 02:47:48: 18000000 INFO @ Wed, 28 Jun 2017 02:47:49: 17000000 INFO @ Wed, 28 Jun 2017 02:47:52: 17000000 INFO @ Wed, 28 Jun 2017 02:47:54: 19000000 INFO @ Wed, 28 Jun 2017 02:47:56: 18000000 INFO @ Wed, 28 Jun 2017 02:47:59: 18000000 INFO @ Wed, 28 Jun 2017 02:48:01: 20000000 INFO @ Wed, 28 Jun 2017 02:48:03: 19000000 INFO @ Wed, 28 Jun 2017 02:48:05: 19000000 INFO @ Wed, 28 Jun 2017 02:48:07: 21000000 INFO @ Wed, 28 Jun 2017 02:48:10: 20000000 INFO @ Wed, 28 Jun 2017 02:48:12: 20000000 INFO @ Wed, 28 Jun 2017 02:48:13: 22000000 INFO @ Wed, 28 Jun 2017 02:48:16: 21000000 INFO @ Wed, 28 Jun 2017 02:48:19: 21000000 INFO @ Wed, 28 Jun 2017 02:48:20: 23000000 INFO @ Wed, 28 Jun 2017 02:48:23: 22000000 INFO @ Wed, 28 Jun 2017 02:48:26: 22000000 INFO @ Wed, 28 Jun 2017 02:48:26: 24000000 INFO @ Wed, 28 Jun 2017 02:48:30: 23000000 INFO @ Wed, 28 Jun 2017 02:48:32: 25000000 INFO @ Wed, 28 Jun 2017 02:48:33: 23000000 INFO @ Wed, 28 Jun 2017 02:48:36: 24000000 INFO @ Wed, 28 Jun 2017 02:48:37: 26000000 INFO @ Wed, 28 Jun 2017 02:48:39: 24000000 INFO @ Wed, 28 Jun 2017 02:48:42: 25000000 INFO @ Wed, 28 Jun 2017 02:48:42: 27000000 INFO @ Wed, 28 Jun 2017 02:48:45: 25000000 INFO @ Wed, 28 Jun 2017 02:48:47: 28000000 INFO @ Wed, 28 Jun 2017 02:48:48: 26000000 INFO @ Wed, 28 Jun 2017 02:48:51: 26000000 INFO @ Wed, 28 Jun 2017 02:48:52: 29000000 INFO @ Wed, 28 Jun 2017 02:48:53: 27000000 INFO @ Wed, 28 Jun 2017 02:48:56: 27000000 INFO @ Wed, 28 Jun 2017 02:48:57: 30000000 INFO @ Wed, 28 Jun 2017 02:48:59: 28000000 INFO @ Wed, 28 Jun 2017 02:49:02: 28000000 INFO @ Wed, 28 Jun 2017 02:49:02: 31000000 INFO @ Wed, 28 Jun 2017 02:49:05: 29000000 INFO @ Wed, 28 Jun 2017 02:49:07: 32000000 INFO @ Wed, 28 Jun 2017 02:49:08: 29000000 INFO @ Wed, 28 Jun 2017 02:49:10: 30000000 INFO @ Wed, 28 Jun 2017 02:49:12: 33000000 INFO @ Wed, 28 Jun 2017 02:49:14: 30000000 INFO @ Wed, 28 Jun 2017 02:49:16: 31000000 INFO @ Wed, 28 Jun 2017 02:49:18: 34000000 INFO @ Wed, 28 Jun 2017 02:49:19: 31000000 INFO @ Wed, 28 Jun 2017 02:49:22: 32000000 INFO @ Wed, 28 Jun 2017 02:49:23: 35000000 INFO @ Wed, 28 Jun 2017 02:49:25: 32000000 INFO @ Wed, 28 Jun 2017 02:49:27: 33000000 INFO @ Wed, 28 Jun 2017 02:49:28: 36000000 INFO @ Wed, 28 Jun 2017 02:49:31: 33000000 INFO @ Wed, 28 Jun 2017 02:49:33: 37000000 INFO @ Wed, 28 Jun 2017 02:49:33: 34000000 INFO @ Wed, 28 Jun 2017 02:49:37: 34000000 INFO @ Wed, 28 Jun 2017 02:49:38: 38000000 INFO @ Wed, 28 Jun 2017 02:49:39: 35000000 INFO @ Wed, 28 Jun 2017 02:49:42: 35000000 INFO @ Wed, 28 Jun 2017 02:49:43: 39000000 INFO @ Wed, 28 Jun 2017 02:49:44: 36000000 INFO @ Wed, 28 Jun 2017 02:49:48: 40000000 INFO @ Wed, 28 Jun 2017 02:49:48: 36000000 INFO @ Wed, 28 Jun 2017 02:49:50: 37000000 INFO @ Wed, 28 Jun 2017 02:49:53: 41000000 INFO @ Wed, 28 Jun 2017 02:49:54: 37000000 INFO @ Wed, 28 Jun 2017 02:49:55: 38000000 INFO @ Wed, 28 Jun 2017 02:49:58: 42000000 INFO @ Wed, 28 Jun 2017 02:50:00: 38000000 INFO @ Wed, 28 Jun 2017 02:50:01: 39000000 INFO @ Wed, 28 Jun 2017 02:50:03: 43000000 INFO @ Wed, 28 Jun 2017 02:50:05: 39000000 INFO @ Wed, 28 Jun 2017 02:50:07: 40000000 INFO @ Wed, 28 Jun 2017 02:50:08: 44000000 INFO @ Wed, 28 Jun 2017 02:50:11: 40000000 INFO @ Wed, 28 Jun 2017 02:50:12: 41000000 INFO @ Wed, 28 Jun 2017 02:50:13: 45000000 INFO @ Wed, 28 Jun 2017 02:50:17: 41000000 INFO @ Wed, 28 Jun 2017 02:50:18: 42000000 INFO @ Wed, 28 Jun 2017 02:50:18: 46000000 INFO @ Wed, 28 Jun 2017 02:50:22: 42000000 INFO @ Wed, 28 Jun 2017 02:50:23: 47000000 INFO @ Wed, 28 Jun 2017 02:50:23: 43000000 INFO @ Wed, 28 Jun 2017 02:50:28: 48000000 INFO @ Wed, 28 Jun 2017 02:50:28: 43000000 INFO @ Wed, 28 Jun 2017 02:50:29: 44000000 INFO @ Wed, 28 Jun 2017 02:50:33: 49000000 INFO @ Wed, 28 Jun 2017 02:50:34: 44000000 INFO @ Wed, 28 Jun 2017 02:50:35: 45000000 INFO @ Wed, 28 Jun 2017 02:50:39: 50000000 INFO @ Wed, 28 Jun 2017 02:50:40: 45000000 INFO @ Wed, 28 Jun 2017 02:50:41: 46000000 INFO @ Wed, 28 Jun 2017 02:50:44: 51000000 INFO @ Wed, 28 Jun 2017 02:50:46: 46000000 INFO @ Wed, 28 Jun 2017 02:50:47: 47000000 INFO @ Wed, 28 Jun 2017 02:50:49: 52000000 INFO @ Wed, 28 Jun 2017 02:50:53: 47000000 INFO @ Wed, 28 Jun 2017 02:50:53: 48000000 INFO @ Wed, 28 Jun 2017 02:50:55: 53000000 INFO @ Wed, 28 Jun 2017 02:50:59: 48000000 INFO @ Wed, 28 Jun 2017 02:50:59: 49000000 INFO @ Wed, 28 Jun 2017 02:51:01: 54000000 INFO @ Wed, 28 Jun 2017 02:51:05: 49000000 INFO @ Wed, 28 Jun 2017 02:51:05: 50000000 INFO @ Wed, 28 Jun 2017 02:51:06: 55000000 INFO @ Wed, 28 Jun 2017 02:51:11: 50000000 INFO @ Wed, 28 Jun 2017 02:51:11: 51000000 INFO @ Wed, 28 Jun 2017 02:51:11: 56000000 INFO @ Wed, 28 Jun 2017 02:51:17: 57000000 INFO @ Wed, 28 Jun 2017 02:51:17: 52000000 INFO @ Wed, 28 Jun 2017 02:51:17: 51000000 INFO @ Wed, 28 Jun 2017 02:51:22: 58000000 INFO @ Wed, 28 Jun 2017 02:51:23: 53000000 INFO @ Wed, 28 Jun 2017 02:51:23: 52000000 INFO @ Wed, 28 Jun 2017 02:51:27: 59000000 INFO @ Wed, 28 Jun 2017 02:51:29: 54000000 INFO @ Wed, 28 Jun 2017 02:51:29: 53000000 INFO @ Wed, 28 Jun 2017 02:51:32: 60000000 INFO @ Wed, 28 Jun 2017 02:51:35: 55000000 INFO @ Wed, 28 Jun 2017 02:51:35: 54000000 INFO @ Wed, 28 Jun 2017 02:51:38: 61000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 02:51:41: 56000000 INFO @ Wed, 28 Jun 2017 02:51:41: 55000000 INFO @ Wed, 28 Jun 2017 02:51:43: 62000000 INFO @ Wed, 28 Jun 2017 02:51:46: 57000000 INFO @ Wed, 28 Jun 2017 02:51:47: 56000000 INFO @ Wed, 28 Jun 2017 02:51:47: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:51:47: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:51:47: #1 total tags in treatment: 29633200 INFO @ Wed, 28 Jun 2017 02:51:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:51:47: #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 02:51:48: #1 tags after filtering in treatment: 14530272 INFO @ Wed, 28 Jun 2017 02:51:48: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 02:51:48: #1 finished! INFO @ Wed, 28 Jun 2017 02:51:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:51:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:51:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:51:49: 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 02:51:49: Process for pairing-model is terminated! cat: SRX2831027.10_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 `SRX2831027.10_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 `SRX2831027.10_*.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 `SRX2831027.10_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 02:51:52: 58000000 INFO @ Wed, 28 Jun 2017 02:51:53: 57000000 INFO @ Wed, 28 Jun 2017 02:51:58: 59000000 INFO @ Wed, 28 Jun 2017 02:51:59: 58000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 02:52:03: 60000000 INFO @ Wed, 28 Jun 2017 02:52:04: 59000000 INFO @ Wed, 28 Jun 2017 02:52:09: 61000000 INFO @ Wed, 28 Jun 2017 02:52:10: 60000000 INFO @ Wed, 28 Jun 2017 02:52:14: 62000000 INFO @ Wed, 28 Jun 2017 02:52:15: 61000000 INFO @ Wed, 28 Jun 2017 02:52:18: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:52:18: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:52:18: #1 total tags in treatment: 29633200 INFO @ Wed, 28 Jun 2017 02:52:18: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:52:18: #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 02:52:19: #1 tags after filtering in treatment: 14530272 INFO @ Wed, 28 Jun 2017 02:52:19: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 02:52:19: #1 finished! INFO @ Wed, 28 Jun 2017 02:52:19: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:52:20: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:52:20: 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 02:52:20: Process for pairing-model is terminated! cat: SRX2831027.05_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 `SRX2831027.05_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 `SRX2831027.05_*.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 `SRX2831027.05_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 @ Wed, 28 Jun 2017 02:52:21: 62000000 INFO @ Wed, 28 Jun 2017 02:52:25: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:52:25: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:52:25: #1 total tags in treatment: 29633200 INFO @ Wed, 28 Jun 2017 02:52:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:52:25: #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 02:52:26: #1 tags after filtering in treatment: 14530272 INFO @ Wed, 28 Jun 2017 02:52:26: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 02:52:26: #1 finished! INFO @ Wed, 28 Jun 2017 02:52:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:52:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:52:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:52:27: 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 02:52:27: Process for pairing-model is terminated! cat: SRX2831027.20_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831027.20_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 `SRX2831027.20_*.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 `SRX2831027.20_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