Job ID = 9162111 sra ファイルのダウンロード中... Completed: 1208550K bytes transferred in 13 seconds (758889K 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 24806496 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1631852/SRR3225791.sra Written 24806496 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: 00:20:50 24806496 reads; of these: 24806496 (100.00%) were paired; of these: 1315364 (5.30%) aligned concordantly 0 times 20055770 (80.85%) aligned concordantly exactly 1 time 3435362 (13.85%) aligned concordantly >1 times ---- 1315364 pairs aligned concordantly 0 times; of these: 243510 (18.51%) aligned discordantly 1 time ---- 1071854 pairs aligned 0 times concordantly or discordantly; of these: 2143708 mates make up the pairs; of these: 1828023 (85.27%) aligned 0 times 163135 (7.61%) aligned exactly 1 time 152550 (7.12%) aligned >1 times 96.32% overall alignment rate Time searching: 00:20:50 Overall time: 00:20:50 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 20 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] 1061096 / 23642870 = 0.0449 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 06:29:11: # Command line: callpeak -t SRX1631852.bam -f BAM -g 12100000 -n SRX1631852.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1631852.20 # format = BAM # ChIP-seq file = ['SRX1631852.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 06:29:11: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:29:11: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:29:11: # Command line: callpeak -t SRX1631852.bam -f BAM -g 12100000 -n SRX1631852.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1631852.05 # format = BAM # ChIP-seq file = ['SRX1631852.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 06:29:11: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:29:11: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:29:11: # Command line: callpeak -t SRX1631852.bam -f BAM -g 12100000 -n SRX1631852.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1631852.10 # format = BAM # ChIP-seq file = ['SRX1631852.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 06:29:11: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:29:11: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:29:17: 1000000 INFO @ Wed, 28 Jun 2017 06:29:17: 1000000 INFO @ Wed, 28 Jun 2017 06:29:17: 1000000 INFO @ Wed, 28 Jun 2017 06:29:23: 2000000 INFO @ Wed, 28 Jun 2017 06:29:23: 2000000 INFO @ Wed, 28 Jun 2017 06:29:23: 2000000 INFO @ Wed, 28 Jun 2017 06:29:29: 3000000 INFO @ Wed, 28 Jun 2017 06:29:29: 3000000 INFO @ Wed, 28 Jun 2017 06:29:29: 3000000 INFO @ Wed, 28 Jun 2017 06:29:34: 4000000 INFO @ Wed, 28 Jun 2017 06:29:34: 4000000 INFO @ Wed, 28 Jun 2017 06:29:35: 4000000 INFO @ Wed, 28 Jun 2017 06:29:40: 5000000 INFO @ Wed, 28 Jun 2017 06:29:40: 5000000 INFO @ Wed, 28 Jun 2017 06:29:40: 5000000 INFO @ Wed, 28 Jun 2017 06:29:46: 6000000 INFO @ Wed, 28 Jun 2017 06:29:46: 6000000 INFO @ Wed, 28 Jun 2017 06:29:46: 6000000 INFO @ Wed, 28 Jun 2017 06:29:52: 7000000 INFO @ Wed, 28 Jun 2017 06:29:52: 7000000 INFO @ Wed, 28 Jun 2017 06:29:54: 7000000 INFO @ Wed, 28 Jun 2017 06:29:59: 8000000 INFO @ Wed, 28 Jun 2017 06:29:59: 8000000 INFO @ Wed, 28 Jun 2017 06:30:01: 8000000 INFO @ Wed, 28 Jun 2017 06:30:05: 9000000 INFO @ Wed, 28 Jun 2017 06:30:05: 9000000 INFO @ Wed, 28 Jun 2017 06:30:09: 9000000 INFO @ Wed, 28 Jun 2017 06:30:12: 10000000 INFO @ Wed, 28 Jun 2017 06:30:12: 10000000 INFO @ Wed, 28 Jun 2017 06:30:16: 10000000 INFO @ Wed, 28 Jun 2017 06:30:18: 11000000 INFO @ Wed, 28 Jun 2017 06:30:18: 11000000 INFO @ Wed, 28 Jun 2017 06:30:23: 11000000 INFO @ Wed, 28 Jun 2017 06:30:25: 12000000 INFO @ Wed, 28 Jun 2017 06:30:25: 12000000 INFO @ Wed, 28 Jun 2017 06:30:30: 12000000 INFO @ Wed, 28 Jun 2017 06:30:31: 13000000 INFO @ Wed, 28 Jun 2017 06:30:31: 13000000 INFO @ Wed, 28 Jun 2017 06:30:38: 13000000 INFO @ Wed, 28 Jun 2017 06:30:38: 14000000 INFO @ Wed, 28 Jun 2017 06:30:38: 14000000 INFO @ Wed, 28 Jun 2017 06:30:45: 15000000 INFO @ Wed, 28 Jun 2017 06:30:45: 15000000 INFO @ Wed, 28 Jun 2017 06:30:45: 14000000 INFO @ Wed, 28 Jun 2017 06:30:52: 16000000 INFO @ Wed, 28 Jun 2017 06:30:52: 16000000 INFO @ Wed, 28 Jun 2017 06:30:53: 15000000 INFO @ Wed, 28 Jun 2017 06:31:00: 17000000 INFO @ Wed, 28 Jun 2017 06:31:00: 17000000 INFO @ Wed, 28 Jun 2017 06:31:01: 16000000 INFO @ Wed, 28 Jun 2017 06:31:08: 18000000 INFO @ Wed, 28 Jun 2017 06:31:08: 18000000 INFO @ Wed, 28 Jun 2017 06:31:09: 17000000 INFO @ Wed, 28 Jun 2017 06:31:16: 19000000 INFO @ Wed, 28 Jun 2017 06:31:16: 19000000 INFO @ Wed, 28 Jun 2017 06:31:17: 18000000 INFO @ Wed, 28 Jun 2017 06:31:24: 20000000 INFO @ Wed, 28 Jun 2017 06:31:24: 20000000 INFO @ Wed, 28 Jun 2017 06:31:25: 19000000 INFO @ Wed, 28 Jun 2017 06:31:32: 21000000 INFO @ Wed, 28 Jun 2017 06:31:32: 21000000 INFO @ Wed, 28 Jun 2017 06:31:33: 20000000 INFO @ Wed, 28 Jun 2017 06:31:40: 22000000 INFO @ Wed, 28 Jun 2017 06:31:40: 22000000 INFO @ Wed, 28 Jun 2017 06:31:41: 21000000 INFO @ Wed, 28 Jun 2017 06:31:48: 23000000 INFO @ Wed, 28 Jun 2017 06:31:48: 23000000 INFO @ Wed, 28 Jun 2017 06:31:49: 22000000 INFO @ Wed, 28 Jun 2017 06:31:55: 24000000 INFO @ Wed, 28 Jun 2017 06:31:55: 24000000 INFO @ Wed, 28 Jun 2017 06:31:57: 23000000 INFO @ Wed, 28 Jun 2017 06:32:03: 25000000 INFO @ Wed, 28 Jun 2017 06:32:03: 25000000 INFO @ Wed, 28 Jun 2017 06:32:05: 24000000 INFO @ Wed, 28 Jun 2017 06:32:11: 26000000 INFO @ Wed, 28 Jun 2017 06:32:11: 26000000 INFO @ Wed, 28 Jun 2017 06:32:13: 25000000 INFO @ Wed, 28 Jun 2017 06:32:19: 27000000 INFO @ Wed, 28 Jun 2017 06:32:20: 27000000 INFO @ Wed, 28 Jun 2017 06:32:21: 26000000 INFO @ Wed, 28 Jun 2017 06:32:27: 28000000 INFO @ Wed, 28 Jun 2017 06:32:29: 27000000 INFO @ Wed, 28 Jun 2017 06:32:30: 28000000 INFO @ Wed, 28 Jun 2017 06:32:34: 29000000 INFO @ Wed, 28 Jun 2017 06:32:37: 28000000 INFO @ Wed, 28 Jun 2017 06:32:39: 29000000 INFO @ Wed, 28 Jun 2017 06:32:42: 30000000 INFO @ Wed, 28 Jun 2017 06:32:46: 29000000 INFO @ Wed, 28 Jun 2017 06:32:49: 30000000 INFO @ Wed, 28 Jun 2017 06:32:50: 31000000 INFO @ Wed, 28 Jun 2017 06:32:54: 30000000 INFO @ Wed, 28 Jun 2017 06:32:58: 32000000 INFO @ Wed, 28 Jun 2017 06:32:58: 31000000 INFO @ Wed, 28 Jun 2017 06:33:02: 31000000 INFO @ Wed, 28 Jun 2017 06:33:05: 33000000 INFO @ Wed, 28 Jun 2017 06:33:08: 32000000 INFO @ Wed, 28 Jun 2017 06:33:10: 32000000 INFO @ Wed, 28 Jun 2017 06:33:12: 34000000 INFO @ Wed, 28 Jun 2017 06:33:17: 33000000 INFO @ Wed, 28 Jun 2017 06:33:17: 33000000 INFO @ Wed, 28 Jun 2017 06:33:19: 35000000 INFO @ Wed, 28 Jun 2017 06:33:25: 34000000 INFO @ Wed, 28 Jun 2017 06:33:25: 34000000 INFO @ Wed, 28 Jun 2017 06:33:25: 36000000 INFO @ Wed, 28 Jun 2017 06:33:32: 37000000 INFO @ Wed, 28 Jun 2017 06:33:32: 35000000 INFO @ Wed, 28 Jun 2017 06:33:34: 35000000 INFO @ Wed, 28 Jun 2017 06:33:39: 38000000 INFO @ Wed, 28 Jun 2017 06:33:40: 36000000 INFO @ Wed, 28 Jun 2017 06:33:43: 36000000 INFO @ Wed, 28 Jun 2017 06:33:46: 39000000 INFO @ Wed, 28 Jun 2017 06:33:48: 37000000 INFO @ Wed, 28 Jun 2017 06:33:51: 37000000 INFO @ Wed, 28 Jun 2017 06:33:52: 40000000 INFO @ Wed, 28 Jun 2017 06:33:55: 38000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 06:33:59: 41000000 INFO @ Wed, 28 Jun 2017 06:34:00: 38000000 INFO @ Wed, 28 Jun 2017 06:34:03: 39000000 INFO @ Wed, 28 Jun 2017 06:34:06: 42000000 INFO @ Wed, 28 Jun 2017 06:34:08: 39000000 INFO @ Wed, 28 Jun 2017 06:34:10: 40000000 INFO @ Wed, 28 Jun 2017 06:34:12: 43000000 INFO @ Wed, 28 Jun 2017 06:34:17: 40000000 INFO @ Wed, 28 Jun 2017 06:34:18: 41000000 INFO @ Wed, 28 Jun 2017 06:34:19: 44000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 06:34:25: 42000000 INFO @ Wed, 28 Jun 2017 06:34:25: 45000000 INFO @ Wed, 28 Jun 2017 06:34:26: 41000000 INFO @ Wed, 28 Jun 2017 06:34:30: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:34:30: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:34:30: #1 total tags in treatment: 22431572 INFO @ Wed, 28 Jun 2017 06:34:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:34:30: #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 06:34:30: #1 tags after filtering in treatment: 13185691 INFO @ Wed, 28 Jun 2017 06:34:30: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 06:34:30: #1 finished! INFO @ Wed, 28 Jun 2017 06:34:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:34:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:34:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:34:31: 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 06:34:31: Process for pairing-model is terminated! cat: SRX1631852.05_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 `SRX1631852.05_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 `SRX1631852.05_*.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 `SRX1631852.05_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 06:34:33: 43000000 INFO @ Wed, 28 Jun 2017 06:34:34: 42000000 INFO @ Wed, 28 Jun 2017 06:34:41: 44000000 INFO @ Wed, 28 Jun 2017 06:34:43: 43000000 INFO @ Wed, 28 Jun 2017 06:34:48: 45000000 INFO @ Wed, 28 Jun 2017 06:34:52: 44000000 INFO @ Wed, 28 Jun 2017 06:34:53: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:34:53: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:34:53: #1 total tags in treatment: 22431572 INFO @ Wed, 28 Jun 2017 06:34:53: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:34:53: #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 06:34:54: #1 tags after filtering in treatment: 13185691 INFO @ Wed, 28 Jun 2017 06:34:54: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 06:34:54: #1 finished! INFO @ Wed, 28 Jun 2017 06:34:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:34:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:34:55: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:34:55: 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 06:34:55: Process for pairing-model is terminated! cat: SRX1631852.20_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 `SRX1631852.20_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 `SRX1631852.20_*.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 `SRX1631852.20_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 06:35:00: 45000000 INFO @ Wed, 28 Jun 2017 06:35:06: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:35:06: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:35:06: #1 total tags in treatment: 22431572 INFO @ Wed, 28 Jun 2017 06:35:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:35:06: #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 06:35:07: #1 tags after filtering in treatment: 13185691 INFO @ Wed, 28 Jun 2017 06:35:07: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 06:35:07: #1 finished! INFO @ Wed, 28 Jun 2017 06:35:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:35:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:35:07: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:35:07: 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 06:35:07: Process for pairing-model is terminated! cat: SRX1631852.10_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 `SRX1631852.10_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 `SRX1631852.10_*.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 `SRX1631852.10_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