Job ID = 9160172 sra ファイルのダウンロード中... Completed: 1131907K bytes transferred in 78 seconds (118646K 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 27207025 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831019/SRR5572333.sra Written 27207025 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: 00:23:46 27207025 reads; of these: 27207025 (100.00%) were paired; of these: 1677117 (6.16%) aligned concordantly 0 times 22487810 (82.65%) aligned concordantly exactly 1 time 3042098 (11.18%) aligned concordantly >1 times ---- 1677117 pairs aligned concordantly 0 times; of these: 879876 (52.46%) aligned discordantly 1 time ---- 797241 pairs aligned 0 times concordantly or discordantly; of these: 1594482 mates make up the pairs; of these: 1093359 (68.57%) aligned 0 times 191671 (12.02%) aligned exactly 1 time 309452 (19.41%) aligned >1 times 97.99% overall alignment rate Time searching: 00:23:46 Overall time: 00:23:46 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] 687630 / 26309739 = 0.0261 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 02:39:07: # Command line: callpeak -t SRX2831019.bam -f BAM -g 12100000 -n SRX2831019.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2831019.20 # format = BAM # ChIP-seq file = ['SRX2831019.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 02:39:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:39:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:39:07: # Command line: callpeak -t SRX2831019.bam -f BAM -g 12100000 -n SRX2831019.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2831019.05 # format = BAM # ChIP-seq file = ['SRX2831019.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 02:39:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:39:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:39:07: # Command line: callpeak -t SRX2831019.bam -f BAM -g 12100000 -n SRX2831019.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2831019.10 # format = BAM # ChIP-seq file = ['SRX2831019.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 02:39:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:39:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:39:14: 1000000 INFO @ Wed, 28 Jun 2017 02:39:14: 1000000 INFO @ Wed, 28 Jun 2017 02:39:14: 1000000 INFO @ Wed, 28 Jun 2017 02:39:20: 2000000 INFO @ Wed, 28 Jun 2017 02:39:20: 2000000 INFO @ Wed, 28 Jun 2017 02:39:21: 2000000 INFO @ Wed, 28 Jun 2017 02:39:26: 3000000 INFO @ Wed, 28 Jun 2017 02:39:27: 3000000 INFO @ Wed, 28 Jun 2017 02:39:27: 3000000 INFO @ Wed, 28 Jun 2017 02:39:33: 4000000 INFO @ Wed, 28 Jun 2017 02:39:33: 4000000 INFO @ Wed, 28 Jun 2017 02:39:34: 4000000 INFO @ Wed, 28 Jun 2017 02:39:39: 5000000 INFO @ Wed, 28 Jun 2017 02:39:39: 5000000 INFO @ Wed, 28 Jun 2017 02:39:41: 5000000 INFO @ Wed, 28 Jun 2017 02:39:45: 6000000 INFO @ Wed, 28 Jun 2017 02:39:46: 6000000 INFO @ Wed, 28 Jun 2017 02:39:48: 6000000 INFO @ Wed, 28 Jun 2017 02:39:52: 7000000 INFO @ Wed, 28 Jun 2017 02:39:52: 7000000 INFO @ Wed, 28 Jun 2017 02:39:54: 7000000 INFO @ Wed, 28 Jun 2017 02:39:58: 8000000 INFO @ Wed, 28 Jun 2017 02:39:58: 8000000 INFO @ Wed, 28 Jun 2017 02:40:01: 8000000 INFO @ Wed, 28 Jun 2017 02:40:04: 9000000 INFO @ Wed, 28 Jun 2017 02:40:05: 9000000 INFO @ Wed, 28 Jun 2017 02:40:08: 9000000 INFO @ Wed, 28 Jun 2017 02:40:11: 10000000 INFO @ Wed, 28 Jun 2017 02:40:11: 10000000 INFO @ Wed, 28 Jun 2017 02:40:14: 10000000 INFO @ Wed, 28 Jun 2017 02:40:17: 11000000 INFO @ Wed, 28 Jun 2017 02:40:17: 11000000 INFO @ Wed, 28 Jun 2017 02:40:21: 11000000 INFO @ Wed, 28 Jun 2017 02:40:24: 12000000 INFO @ Wed, 28 Jun 2017 02:40:24: 12000000 INFO @ Wed, 28 Jun 2017 02:40:27: 12000000 INFO @ Wed, 28 Jun 2017 02:40:30: 13000000 INFO @ Wed, 28 Jun 2017 02:40:30: 13000000 INFO @ Wed, 28 Jun 2017 02:40:34: 13000000 INFO @ Wed, 28 Jun 2017 02:40:36: 14000000 INFO @ Wed, 28 Jun 2017 02:40:37: 14000000 INFO @ Wed, 28 Jun 2017 02:40:40: 14000000 INFO @ Wed, 28 Jun 2017 02:40:43: 15000000 INFO @ Wed, 28 Jun 2017 02:40:43: 15000000 INFO @ Wed, 28 Jun 2017 02:40:47: 15000000 INFO @ Wed, 28 Jun 2017 02:40:49: 16000000 INFO @ Wed, 28 Jun 2017 02:40:49: 16000000 INFO @ Wed, 28 Jun 2017 02:40:53: 16000000 INFO @ Wed, 28 Jun 2017 02:40:56: 17000000 INFO @ Wed, 28 Jun 2017 02:40:56: 17000000 INFO @ Wed, 28 Jun 2017 02:41:00: 17000000 INFO @ Wed, 28 Jun 2017 02:41:02: 18000000 INFO @ Wed, 28 Jun 2017 02:41:02: 18000000 INFO @ Wed, 28 Jun 2017 02:41:06: 18000000 INFO @ Wed, 28 Jun 2017 02:41:08: 19000000 INFO @ Wed, 28 Jun 2017 02:41:08: 19000000 INFO @ Wed, 28 Jun 2017 02:41:12: 19000000 INFO @ Wed, 28 Jun 2017 02:41:15: 20000000 INFO @ Wed, 28 Jun 2017 02:41:15: 20000000 INFO @ Wed, 28 Jun 2017 02:41:19: 20000000 INFO @ Wed, 28 Jun 2017 02:41:21: 21000000 INFO @ Wed, 28 Jun 2017 02:41:21: 21000000 INFO @ Wed, 28 Jun 2017 02:41:25: 21000000 INFO @ Wed, 28 Jun 2017 02:41:28: 22000000 INFO @ Wed, 28 Jun 2017 02:41:28: 22000000 INFO @ Wed, 28 Jun 2017 02:41:32: 22000000 INFO @ Wed, 28 Jun 2017 02:41:34: 23000000 INFO @ Wed, 28 Jun 2017 02:41:34: 23000000 INFO @ Wed, 28 Jun 2017 02:41:38: 23000000 INFO @ Wed, 28 Jun 2017 02:41:41: 24000000 INFO @ Wed, 28 Jun 2017 02:41:41: 24000000 INFO @ Wed, 28 Jun 2017 02:41:44: 24000000 INFO @ Wed, 28 Jun 2017 02:41:47: 25000000 INFO @ Wed, 28 Jun 2017 02:41:48: 25000000 INFO @ Wed, 28 Jun 2017 02:41:51: 25000000 INFO @ Wed, 28 Jun 2017 02:41:54: 26000000 INFO @ Wed, 28 Jun 2017 02:41:54: 26000000 INFO @ Wed, 28 Jun 2017 02:41:57: 26000000 INFO @ Wed, 28 Jun 2017 02:42:00: 27000000 INFO @ Wed, 28 Jun 2017 02:42:00: 27000000 INFO @ Wed, 28 Jun 2017 02:42:04: 27000000 INFO @ Wed, 28 Jun 2017 02:42:07: 28000000 INFO @ Wed, 28 Jun 2017 02:42:07: 28000000 INFO @ Wed, 28 Jun 2017 02:42:10: 28000000 INFO @ Wed, 28 Jun 2017 02:42:13: 29000000 INFO @ Wed, 28 Jun 2017 02:42:14: 29000000 INFO @ Wed, 28 Jun 2017 02:42:17: 29000000 INFO @ Wed, 28 Jun 2017 02:42:20: 30000000 INFO @ Wed, 28 Jun 2017 02:42:20: 30000000 INFO @ Wed, 28 Jun 2017 02:42:23: 30000000 INFO @ Wed, 28 Jun 2017 02:42:27: 31000000 INFO @ Wed, 28 Jun 2017 02:42:27: 31000000 INFO @ Wed, 28 Jun 2017 02:42:30: 31000000 INFO @ Wed, 28 Jun 2017 02:42:33: 32000000 INFO @ Wed, 28 Jun 2017 02:42:33: 32000000 INFO @ Wed, 28 Jun 2017 02:42:36: 32000000 INFO @ Wed, 28 Jun 2017 02:42:40: 33000000 INFO @ Wed, 28 Jun 2017 02:42:40: 33000000 INFO @ Wed, 28 Jun 2017 02:42:42: 33000000 INFO @ Wed, 28 Jun 2017 02:42:46: 34000000 INFO @ Wed, 28 Jun 2017 02:42:46: 34000000 INFO @ Wed, 28 Jun 2017 02:42:49: 34000000 INFO @ Wed, 28 Jun 2017 02:42:53: 35000000 INFO @ Wed, 28 Jun 2017 02:42:53: 35000000 INFO @ Wed, 28 Jun 2017 02:42:55: 35000000 INFO @ Wed, 28 Jun 2017 02:43:00: 36000000 INFO @ Wed, 28 Jun 2017 02:43:00: 36000000 INFO @ Wed, 28 Jun 2017 02:43:02: 36000000 INFO @ Wed, 28 Jun 2017 02:43:06: 37000000 INFO @ Wed, 28 Jun 2017 02:43:06: 37000000 INFO @ Wed, 28 Jun 2017 02:43:08: 37000000 INFO @ Wed, 28 Jun 2017 02:43:13: 38000000 INFO @ Wed, 28 Jun 2017 02:43:13: 38000000 INFO @ Wed, 28 Jun 2017 02:43:14: 38000000 INFO @ Wed, 28 Jun 2017 02:43:19: 39000000 INFO @ Wed, 28 Jun 2017 02:43:20: 39000000 INFO @ Wed, 28 Jun 2017 02:43:21: 39000000 INFO @ Wed, 28 Jun 2017 02:43:26: 40000000 INFO @ Wed, 28 Jun 2017 02:43:26: 40000000 INFO @ Wed, 28 Jun 2017 02:43:27: 40000000 INFO @ Wed, 28 Jun 2017 02:43:33: 41000000 INFO @ Wed, 28 Jun 2017 02:43:33: 41000000 INFO @ Wed, 28 Jun 2017 02:43:33: 41000000 INFO @ Wed, 28 Jun 2017 02:43:39: 42000000 INFO @ Wed, 28 Jun 2017 02:43:39: 42000000 INFO @ Wed, 28 Jun 2017 02:43:39: 42000000 INFO @ Wed, 28 Jun 2017 02:43:46: 43000000 INFO @ Wed, 28 Jun 2017 02:43:46: 43000000 INFO @ Wed, 28 Jun 2017 02:43:46: 43000000 INFO @ Wed, 28 Jun 2017 02:43:52: 44000000 INFO @ Wed, 28 Jun 2017 02:43:52: 44000000 INFO @ Wed, 28 Jun 2017 02:43:53: 44000000 INFO @ Wed, 28 Jun 2017 02:43:59: 45000000 INFO @ Wed, 28 Jun 2017 02:43:59: 45000000 INFO @ Wed, 28 Jun 2017 02:43:59: 45000000 INFO @ Wed, 28 Jun 2017 02:44:05: 46000000 INFO @ Wed, 28 Jun 2017 02:44:06: 46000000 INFO @ Wed, 28 Jun 2017 02:44:06: 46000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 02:44:12: 47000000 INFO @ Wed, 28 Jun 2017 02:44:12: 47000000 INFO @ Wed, 28 Jun 2017 02:44:12: 47000000 INFO @ Wed, 28 Jun 2017 02:44:18: 48000000 INFO @ Wed, 28 Jun 2017 02:44:18: 48000000 INFO @ Wed, 28 Jun 2017 02:44:18: 48000000 INFO @ Wed, 28 Jun 2017 02:44:25: 49000000 INFO @ Wed, 28 Jun 2017 02:44:25: 49000000 INFO @ Wed, 28 Jun 2017 02:44:25: 49000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 02:44:31: 50000000 INFO @ Wed, 28 Jun 2017 02:44:31: 50000000 INFO @ Wed, 28 Jun 2017 02:44:31: 50000000 INFO @ Wed, 28 Jun 2017 02:44:38: 51000000 INFO @ Wed, 28 Jun 2017 02:44:38: 51000000 INFO @ Wed, 28 Jun 2017 02:44:38: 51000000 INFO @ Wed, 28 Jun 2017 02:44:44: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:44:44: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:44:44: #1 total tags in treatment: 24850230 INFO @ Wed, 28 Jun 2017 02:44:44: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:44:44: #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 02:44:44: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:44:44: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:44:44: #1 total tags in treatment: 24850230 INFO @ Wed, 28 Jun 2017 02:44:44: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:44:44: #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 02:44:44: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:44:44: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:44:44: #1 total tags in treatment: 24850230 INFO @ Wed, 28 Jun 2017 02:44:44: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:44:44: #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 02:44:45: #1 tags after filtering in treatment: 14622905 INFO @ Wed, 28 Jun 2017 02:44:45: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 02:44:45: #1 finished! INFO @ Wed, 28 Jun 2017 02:44:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:44:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:44:45: #1 tags after filtering in treatment: 14622905 INFO @ Wed, 28 Jun 2017 02:44:45: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 02:44:45: #1 finished! INFO @ Wed, 28 Jun 2017 02:44:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:44:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:44:45: #1 tags after filtering in treatment: 14622905 INFO @ Wed, 28 Jun 2017 02:44:45: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 02:44:45: #1 finished! INFO @ Wed, 28 Jun 2017 02:44:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:44:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:44:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:44:46: 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 02:44:46: Process for pairing-model is terminated! cat: SRX2831019.20_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 `SRX2831019.20_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 `SRX2831019.20_*.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 `SRX2831019.20_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 02:44:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:44:46: 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 02:44:46: Process for pairing-model is terminated! cat: SRX2831019.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831019.10_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 `SRX2831019.10_*.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 `SRX2831019.10_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 02:44:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:44:46: 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 02:44:46: Process for pairing-model is terminated! cat: SRX2831019.05_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 `SRX2831019.05_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 `SRX2831019.05_*.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 `SRX2831019.05_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