Job ID = 9161778 sra ファイルのダウンロード中... Completed: 1217159K bytes transferred in 16 seconds (595069K 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 26430642 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044164/SRR2045642.sra Written 26430642 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: 00:21:48 26430642 reads; of these: 26430642 (100.00%) were paired; of these: 2035456 (7.70%) aligned concordantly 0 times 20592977 (77.91%) aligned concordantly exactly 1 time 3802209 (14.39%) aligned concordantly >1 times ---- 2035456 pairs aligned concordantly 0 times; of these: 766323 (37.65%) aligned discordantly 1 time ---- 1269133 pairs aligned 0 times concordantly or discordantly; of these: 2538266 mates make up the pairs; of these: 1928221 (75.97%) aligned 0 times 218737 (8.62%) aligned exactly 1 time 391308 (15.42%) aligned >1 times 96.35% overall alignment rate Time searching: 00:21:48 Overall time: 00:21:48 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] 1314506 / 24970504 = 0.0526 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 05:10:45: # Command line: callpeak -t SRX1044164.bam -f BAM -g 12100000 -n SRX1044164.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044164.05 # format = BAM # ChIP-seq file = ['SRX1044164.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 05:10:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:10:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:10:45: # Command line: callpeak -t SRX1044164.bam -f BAM -g 12100000 -n SRX1044164.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044164.20 # format = BAM # ChIP-seq file = ['SRX1044164.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 05:10:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:10:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:10:45: # Command line: callpeak -t SRX1044164.bam -f BAM -g 12100000 -n SRX1044164.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044164.10 # format = BAM # ChIP-seq file = ['SRX1044164.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 05:10:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:10:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:10:51: 1000000 INFO @ Wed, 28 Jun 2017 05:10:52: 1000000 INFO @ Wed, 28 Jun 2017 05:10:52: 1000000 INFO @ Wed, 28 Jun 2017 05:10:57: 2000000 INFO @ Wed, 28 Jun 2017 05:10:58: 2000000 INFO @ Wed, 28 Jun 2017 05:10:58: 2000000 INFO @ Wed, 28 Jun 2017 05:11:02: 3000000 INFO @ Wed, 28 Jun 2017 05:11:04: 3000000 INFO @ Wed, 28 Jun 2017 05:11:04: 3000000 INFO @ Wed, 28 Jun 2017 05:11:08: 4000000 INFO @ Wed, 28 Jun 2017 05:11:11: 4000000 INFO @ Wed, 28 Jun 2017 05:11:11: 4000000 INFO @ Wed, 28 Jun 2017 05:11:14: 5000000 INFO @ Wed, 28 Jun 2017 05:11:17: 5000000 INFO @ Wed, 28 Jun 2017 05:11:17: 5000000 INFO @ Wed, 28 Jun 2017 05:11:20: 6000000 INFO @ Wed, 28 Jun 2017 05:11:23: 6000000 INFO @ Wed, 28 Jun 2017 05:11:23: 6000000 INFO @ Wed, 28 Jun 2017 05:11:26: 7000000 INFO @ Wed, 28 Jun 2017 05:11:30: 7000000 INFO @ Wed, 28 Jun 2017 05:11:30: 7000000 INFO @ Wed, 28 Jun 2017 05:11:32: 8000000 INFO @ Wed, 28 Jun 2017 05:11:36: 8000000 INFO @ Wed, 28 Jun 2017 05:11:36: 8000000 INFO @ Wed, 28 Jun 2017 05:11:38: 9000000 INFO @ Wed, 28 Jun 2017 05:11:43: 9000000 INFO @ Wed, 28 Jun 2017 05:11:43: 9000000 INFO @ Wed, 28 Jun 2017 05:11:44: 10000000 INFO @ Wed, 28 Jun 2017 05:11:49: 10000000 INFO @ Wed, 28 Jun 2017 05:11:49: 10000000 INFO @ Wed, 28 Jun 2017 05:11:50: 11000000 INFO @ Wed, 28 Jun 2017 05:11:56: 11000000 INFO @ Wed, 28 Jun 2017 05:11:56: 11000000 INFO @ Wed, 28 Jun 2017 05:11:56: 12000000 INFO @ Wed, 28 Jun 2017 05:12:02: 13000000 INFO @ Wed, 28 Jun 2017 05:12:02: 12000000 INFO @ Wed, 28 Jun 2017 05:12:02: 12000000 INFO @ Wed, 28 Jun 2017 05:12:08: 14000000 INFO @ Wed, 28 Jun 2017 05:12:09: 13000000 INFO @ Wed, 28 Jun 2017 05:12:09: 13000000 INFO @ Wed, 28 Jun 2017 05:12:14: 15000000 INFO @ Wed, 28 Jun 2017 05:12:15: 14000000 INFO @ Wed, 28 Jun 2017 05:12:15: 14000000 INFO @ Wed, 28 Jun 2017 05:12:20: 16000000 INFO @ Wed, 28 Jun 2017 05:12:22: 15000000 INFO @ Wed, 28 Jun 2017 05:12:22: 15000000 INFO @ Wed, 28 Jun 2017 05:12:26: 17000000 INFO @ Wed, 28 Jun 2017 05:12:28: 16000000 INFO @ Wed, 28 Jun 2017 05:12:28: 16000000 INFO @ Wed, 28 Jun 2017 05:12:33: 18000000 INFO @ Wed, 28 Jun 2017 05:12:34: 17000000 INFO @ Wed, 28 Jun 2017 05:12:35: 17000000 INFO @ Wed, 28 Jun 2017 05:12:39: 19000000 INFO @ Wed, 28 Jun 2017 05:12:41: 18000000 INFO @ Wed, 28 Jun 2017 05:12:41: 18000000 INFO @ Wed, 28 Jun 2017 05:12:45: 20000000 INFO @ Wed, 28 Jun 2017 05:12:47: 19000000 INFO @ Wed, 28 Jun 2017 05:12:48: 19000000 INFO @ Wed, 28 Jun 2017 05:12:51: 21000000 INFO @ Wed, 28 Jun 2017 05:12:54: 20000000 INFO @ Wed, 28 Jun 2017 05:12:54: 20000000 INFO @ Wed, 28 Jun 2017 05:12:58: 22000000 INFO @ Wed, 28 Jun 2017 05:13:00: 21000000 INFO @ Wed, 28 Jun 2017 05:13:01: 21000000 INFO @ Wed, 28 Jun 2017 05:13:04: 23000000 INFO @ Wed, 28 Jun 2017 05:13:07: 22000000 INFO @ Wed, 28 Jun 2017 05:13:07: 22000000 INFO @ Wed, 28 Jun 2017 05:13:10: 24000000 INFO @ Wed, 28 Jun 2017 05:13:13: 23000000 INFO @ Wed, 28 Jun 2017 05:13:14: 23000000 INFO @ Wed, 28 Jun 2017 05:13:16: 25000000 INFO @ Wed, 28 Jun 2017 05:13:20: 24000000 INFO @ Wed, 28 Jun 2017 05:13:21: 24000000 INFO @ Wed, 28 Jun 2017 05:13:22: 26000000 INFO @ Wed, 28 Jun 2017 05:13:27: 25000000 INFO @ Wed, 28 Jun 2017 05:13:27: 25000000 INFO @ Wed, 28 Jun 2017 05:13:28: 27000000 INFO @ Wed, 28 Jun 2017 05:13:33: 26000000 INFO @ Wed, 28 Jun 2017 05:13:34: 26000000 INFO @ Wed, 28 Jun 2017 05:13:34: 28000000 INFO @ Wed, 28 Jun 2017 05:13:40: 27000000 INFO @ Wed, 28 Jun 2017 05:13:40: 29000000 INFO @ Wed, 28 Jun 2017 05:13:41: 27000000 INFO @ Wed, 28 Jun 2017 05:13:46: 30000000 INFO @ Wed, 28 Jun 2017 05:13:47: 28000000 INFO @ Wed, 28 Jun 2017 05:13:48: 28000000 INFO @ Wed, 28 Jun 2017 05:13:52: 31000000 INFO @ Wed, 28 Jun 2017 05:13:54: 29000000 INFO @ Wed, 28 Jun 2017 05:13:54: 29000000 INFO @ Wed, 28 Jun 2017 05:13:58: 32000000 INFO @ Wed, 28 Jun 2017 05:14:00: 30000000 INFO @ Wed, 28 Jun 2017 05:14:01: 30000000 INFO @ Wed, 28 Jun 2017 05:14:04: 33000000 INFO @ Wed, 28 Jun 2017 05:14:07: 31000000 INFO @ Wed, 28 Jun 2017 05:14:07: 31000000 INFO @ Wed, 28 Jun 2017 05:14:10: 34000000 INFO @ Wed, 28 Jun 2017 05:14:13: 32000000 INFO @ Wed, 28 Jun 2017 05:14:14: 32000000 INFO @ Wed, 28 Jun 2017 05:14:16: 35000000 INFO @ Wed, 28 Jun 2017 05:14:20: 33000000 INFO @ Wed, 28 Jun 2017 05:14:21: 33000000 INFO @ Wed, 28 Jun 2017 05:14:22: 36000000 INFO @ Wed, 28 Jun 2017 05:14:26: 34000000 INFO @ Wed, 28 Jun 2017 05:14:27: 34000000 INFO @ Wed, 28 Jun 2017 05:14:28: 37000000 INFO @ Wed, 28 Jun 2017 05:14:33: 35000000 INFO @ Wed, 28 Jun 2017 05:14:34: 35000000 INFO @ Wed, 28 Jun 2017 05:14:34: 38000000 INFO @ Wed, 28 Jun 2017 05:14:40: 36000000 INFO @ Wed, 28 Jun 2017 05:14:40: 39000000 INFO @ Wed, 28 Jun 2017 05:14:41: 36000000 INFO @ Wed, 28 Jun 2017 05:14:46: 40000000 INFO @ Wed, 28 Jun 2017 05:14:47: 37000000 INFO @ Wed, 28 Jun 2017 05:14:48: 37000000 INFO @ Wed, 28 Jun 2017 05:14:52: 41000000 INFO @ Wed, 28 Jun 2017 05:14:53: 38000000 INFO @ Wed, 28 Jun 2017 05:14:54: 38000000 INFO @ Wed, 28 Jun 2017 05:14:58: 42000000 INFO @ Wed, 28 Jun 2017 05:15:00: 39000000 INFO @ Wed, 28 Jun 2017 05:15:01: 39000000 INFO @ Wed, 28 Jun 2017 05:15:04: 43000000 INFO @ Wed, 28 Jun 2017 05:15:07: 40000000 INFO @ Wed, 28 Jun 2017 05:15:08: 40000000 INFO @ Wed, 28 Jun 2017 05:15:10: 44000000 INFO @ Wed, 28 Jun 2017 05:15:13: 41000000 INFO @ Wed, 28 Jun 2017 05:15:15: 41000000 INFO @ Wed, 28 Jun 2017 05:15:17: 45000000 INFO @ Wed, 28 Jun 2017 05:15:20: 42000000 INFO @ Wed, 28 Jun 2017 05:15:21: 42000000 INFO @ Wed, 28 Jun 2017 05:15:23: 46000000 INFO @ Wed, 28 Jun 2017 05:15:26: 43000000 INFO @ Wed, 28 Jun 2017 05:15:28: 43000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 05:15:29: 47000000 INFO @ Wed, 28 Jun 2017 05:15:33: 44000000 INFO @ Wed, 28 Jun 2017 05:15:34: 44000000 INFO @ Wed, 28 Jun 2017 05:15:35: 48000000 INFO @ Wed, 28 Jun 2017 05:15:37: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:15:37: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:15:37: #1 total tags in treatment: 23095650 INFO @ Wed, 28 Jun 2017 05:15:37: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:15:37: #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 05:15:38: #1 tags after filtering in treatment: 13335136 INFO @ Wed, 28 Jun 2017 05:15:38: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 05:15:38: #1 finished! INFO @ Wed, 28 Jun 2017 05:15:38: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:15:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:15:38: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:15:38: 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 05:15:38: Process for pairing-model is terminated! cat: SRX1044164.10_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044164.10_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 `SRX1044164.10_*.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 `SRX1044164.10_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 05:15:40: 45000000 INFO @ Wed, 28 Jun 2017 05:15:41: 45000000 INFO @ Wed, 28 Jun 2017 05:15:46: 46000000 INFO @ Wed, 28 Jun 2017 05:15:48: 46000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 05:15:53: 47000000 INFO @ Wed, 28 Jun 2017 05:15:54: 47000000 INFO @ Wed, 28 Jun 2017 05:16:00: 48000000 INFO @ Wed, 28 Jun 2017 05:16:01: 48000000 INFO @ Wed, 28 Jun 2017 05:16:02: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:16:02: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:16:02: #1 total tags in treatment: 23095650 INFO @ Wed, 28 Jun 2017 05:16:02: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:16:02: #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 05:16:02: #1 tags after filtering in treatment: 13335136 INFO @ Wed, 28 Jun 2017 05:16:02: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 05:16:02: #1 finished! INFO @ Wed, 28 Jun 2017 05:16:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:16:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:16:03: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:16:03: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:16:03: #1 total tags in treatment: 23095650 INFO @ Wed, 28 Jun 2017 05:16:03: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:16:03: #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 05:16:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:16:03: 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 05:16:03: Process for pairing-model is terminated! cat: SRX1044164.20_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 `SRX1044164.20_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 `SRX1044164.20_*.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 `SRX1044164.20_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 05:16:04: #1 tags after filtering in treatment: 13335136 INFO @ Wed, 28 Jun 2017 05:16:04: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 05:16:04: #1 finished! INFO @ Wed, 28 Jun 2017 05:16:04: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:16:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:16:04: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:16:04: 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 05:16:04: Process for pairing-model is terminated! cat: SRX1044164.05_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 `SRX1044164.05_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 `SRX1044164.05_*.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 `SRX1044164.05_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