Job ID = 9161790 sra ファイルのダウンロード中... Completed: 844982K bytes transferred in 10 seconds (681798K 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 19854648 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044177/SRR2045658.sra Written 19854648 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: 00:16:38 19854648 reads; of these: 19854648 (100.00%) were paired; of these: 1916537 (9.65%) aligned concordantly 0 times 15246552 (76.79%) aligned concordantly exactly 1 time 2691559 (13.56%) aligned concordantly >1 times ---- 1916537 pairs aligned concordantly 0 times; of these: 933648 (48.72%) aligned discordantly 1 time ---- 982889 pairs aligned 0 times concordantly or discordantly; of these: 1965778 mates make up the pairs; of these: 1062957 (54.07%) aligned 0 times 416276 (21.18%) aligned exactly 1 time 486545 (24.75%) aligned >1 times 97.32% overall alignment rate Time searching: 00:16:38 Overall time: 00:16:38 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 16 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] 1184127 / 18196028 = 0.0651 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 05:01:33: # Command line: callpeak -t SRX1044177.bam -f BAM -g 12100000 -n SRX1044177.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044177.10 # format = BAM # ChIP-seq file = ['SRX1044177.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 05:01:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:01:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:01:33: # Command line: callpeak -t SRX1044177.bam -f BAM -g 12100000 -n SRX1044177.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044177.05 # format = BAM # ChIP-seq file = ['SRX1044177.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 05:01:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:01:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:01:33: # Command line: callpeak -t SRX1044177.bam -f BAM -g 12100000 -n SRX1044177.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044177.20 # format = BAM # ChIP-seq file = ['SRX1044177.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 05:01:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:01:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:01:40: 1000000 INFO @ Wed, 28 Jun 2017 05:01:40: 1000000 INFO @ Wed, 28 Jun 2017 05:01:40: 1000000 INFO @ Wed, 28 Jun 2017 05:01:46: 2000000 INFO @ Wed, 28 Jun 2017 05:01:47: 2000000 INFO @ Wed, 28 Jun 2017 05:01:47: 2000000 INFO @ Wed, 28 Jun 2017 05:01:53: 3000000 INFO @ Wed, 28 Jun 2017 05:01:54: 3000000 INFO @ Wed, 28 Jun 2017 05:01:54: 3000000 INFO @ Wed, 28 Jun 2017 05:02:00: 4000000 INFO @ Wed, 28 Jun 2017 05:02:01: 4000000 INFO @ Wed, 28 Jun 2017 05:02:01: 4000000 INFO @ Wed, 28 Jun 2017 05:02:06: 5000000 INFO @ Wed, 28 Jun 2017 05:02:08: 5000000 INFO @ Wed, 28 Jun 2017 05:02:08: 5000000 INFO @ Wed, 28 Jun 2017 05:02:13: 6000000 INFO @ Wed, 28 Jun 2017 05:02:15: 6000000 INFO @ Wed, 28 Jun 2017 05:02:15: 6000000 INFO @ Wed, 28 Jun 2017 05:02:19: 7000000 INFO @ Wed, 28 Jun 2017 05:02:22: 7000000 INFO @ Wed, 28 Jun 2017 05:02:22: 7000000 INFO @ Wed, 28 Jun 2017 05:02:26: 8000000 INFO @ Wed, 28 Jun 2017 05:02:29: 8000000 INFO @ Wed, 28 Jun 2017 05:02:29: 8000000 INFO @ Wed, 28 Jun 2017 05:02:32: 9000000 INFO @ Wed, 28 Jun 2017 05:02:36: 9000000 INFO @ Wed, 28 Jun 2017 05:02:36: 9000000 INFO @ Wed, 28 Jun 2017 05:02:39: 10000000 INFO @ Wed, 28 Jun 2017 05:02:43: 10000000 INFO @ Wed, 28 Jun 2017 05:02:43: 10000000 INFO @ Wed, 28 Jun 2017 05:02:45: 11000000 INFO @ Wed, 28 Jun 2017 05:02:50: 11000000 INFO @ Wed, 28 Jun 2017 05:02:50: 11000000 INFO @ Wed, 28 Jun 2017 05:02:52: 12000000 INFO @ Wed, 28 Jun 2017 05:02:58: 12000000 INFO @ Wed, 28 Jun 2017 05:02:58: 12000000 INFO @ Wed, 28 Jun 2017 05:02:58: 13000000 INFO @ Wed, 28 Jun 2017 05:03:05: 13000000 INFO @ Wed, 28 Jun 2017 05:03:05: 13000000 INFO @ Wed, 28 Jun 2017 05:03:05: 14000000 INFO @ Wed, 28 Jun 2017 05:03:12: 15000000 INFO @ Wed, 28 Jun 2017 05:03:12: 14000000 INFO @ Wed, 28 Jun 2017 05:03:12: 14000000 INFO @ Wed, 28 Jun 2017 05:03:18: 16000000 INFO @ Wed, 28 Jun 2017 05:03:19: 15000000 INFO @ Wed, 28 Jun 2017 05:03:19: 15000000 INFO @ Wed, 28 Jun 2017 05:03:25: 17000000 INFO @ Wed, 28 Jun 2017 05:03:27: 16000000 INFO @ Wed, 28 Jun 2017 05:03:27: 16000000 INFO @ Wed, 28 Jun 2017 05:03:31: 18000000 INFO @ Wed, 28 Jun 2017 05:03:35: 17000000 INFO @ Wed, 28 Jun 2017 05:03:35: 17000000 INFO @ Wed, 28 Jun 2017 05:03:38: 19000000 INFO @ Wed, 28 Jun 2017 05:03:42: 18000000 INFO @ Wed, 28 Jun 2017 05:03:42: 18000000 INFO @ Wed, 28 Jun 2017 05:03:44: 20000000 INFO @ Wed, 28 Jun 2017 05:03:50: 19000000 INFO @ Wed, 28 Jun 2017 05:03:50: 19000000 INFO @ Wed, 28 Jun 2017 05:03:51: 21000000 INFO @ Wed, 28 Jun 2017 05:03:58: 22000000 INFO @ Wed, 28 Jun 2017 05:03:58: 20000000 INFO @ Wed, 28 Jun 2017 05:03:58: 20000000 INFO @ Wed, 28 Jun 2017 05:04:04: 23000000 INFO @ Wed, 28 Jun 2017 05:04:06: 21000000 INFO @ Wed, 28 Jun 2017 05:04:06: 21000000 INFO @ Wed, 28 Jun 2017 05:04:11: 24000000 INFO @ Wed, 28 Jun 2017 05:04:14: 22000000 INFO @ Wed, 28 Jun 2017 05:04:14: 22000000 INFO @ Wed, 28 Jun 2017 05:04:17: 25000000 INFO @ Wed, 28 Jun 2017 05:04:21: 23000000 INFO @ Wed, 28 Jun 2017 05:04:21: 23000000 INFO @ Wed, 28 Jun 2017 05:04:24: 26000000 INFO @ Wed, 28 Jun 2017 05:04:28: 24000000 INFO @ Wed, 28 Jun 2017 05:04:28: 24000000 INFO @ Wed, 28 Jun 2017 05:04:31: 27000000 INFO @ Wed, 28 Jun 2017 05:04:36: 25000000 INFO @ Wed, 28 Jun 2017 05:04:36: 25000000 INFO @ Wed, 28 Jun 2017 05:04:38: 28000000 INFO @ Wed, 28 Jun 2017 05:04:43: 26000000 INFO @ Wed, 28 Jun 2017 05:04:43: 26000000 INFO @ Wed, 28 Jun 2017 05:04:44: 29000000 INFO @ Wed, 28 Jun 2017 05:04:50: 27000000 INFO @ Wed, 28 Jun 2017 05:04:50: 27000000 INFO @ Wed, 28 Jun 2017 05:04:51: 30000000 INFO @ Wed, 28 Jun 2017 05:04:57: 31000000 INFO @ Wed, 28 Jun 2017 05:04:57: 28000000 INFO @ Wed, 28 Jun 2017 05:04:57: 28000000 INFO @ Wed, 28 Jun 2017 05:05:03: 32000000 INFO @ Wed, 28 Jun 2017 05:05:04: 29000000 INFO @ Wed, 28 Jun 2017 05:05:04: 29000000 INFO @ Wed, 28 Jun 2017 05:05:10: 33000000 INFO @ Wed, 28 Jun 2017 05:05:11: 30000000 INFO @ Wed, 28 Jun 2017 05:05:11: 30000000 INFO @ Wed, 28 Jun 2017 05:05:16: 34000000 INFO @ Wed, 28 Jun 2017 05:05:18: 31000000 INFO @ Wed, 28 Jun 2017 05:05:18: 31000000 INFO @ Wed, 28 Jun 2017 05:05:22: 35000000 INFO @ Wed, 28 Jun 2017 05:05:26: 32000000 INFO @ Wed, 28 Jun 2017 05:05:26: 32000000 INFO @ Wed, 28 Jun 2017 05:05:29: 36000000 INFO @ Wed, 28 Jun 2017 05:05:31: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:05:31: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:05:31: #1 total tags in treatment: 16765647 INFO @ Wed, 28 Jun 2017 05:05:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:05:31: #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 05:05:31: #1 tags after filtering in treatment: 10551678 INFO @ Wed, 28 Jun 2017 05:05:31: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 28 Jun 2017 05:05:31: #1 finished! INFO @ Wed, 28 Jun 2017 05:05:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:05:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:05:32: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:05:32: 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 05:05:32: Process for pairing-model is terminated! cat: SRX1044177.10_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 `SRX1044177.10_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 `SRX1044177.10_*.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 `SRX1044177.10_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 05:05:33: 33000000 INFO @ Wed, 28 Jun 2017 05:05:33: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 05:05:40: 34000000 INFO @ Wed, 28 Jun 2017 05:05:40: 34000000 INFO @ Wed, 28 Jun 2017 05:05:48: 35000000 INFO @ Wed, 28 Jun 2017 05:05:48: 35000000 INFO @ Wed, 28 Jun 2017 05:05:56: 36000000 INFO @ Wed, 28 Jun 2017 05:05:56: 36000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 05:05:59: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:05:59: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:05:59: #1 total tags in treatment: 16765647 INFO @ Wed, 28 Jun 2017 05:05:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:05:59: #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 05:05:59: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:05:59: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:05:59: #1 total tags in treatment: 16765647 INFO @ Wed, 28 Jun 2017 05:05:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:05:59: #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 05:05:59: #1 tags after filtering in treatment: 10551678 INFO @ Wed, 28 Jun 2017 05:05:59: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 28 Jun 2017 05:05:59: #1 finished! INFO @ Wed, 28 Jun 2017 05:05:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:05:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:05:59: #1 tags after filtering in treatment: 10551678 INFO @ Wed, 28 Jun 2017 05:05:59: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 28 Jun 2017 05:05:59: #1 finished! INFO @ Wed, 28 Jun 2017 05:05:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:05:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:06:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:06:00: 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 05:06:00: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:06:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:06:00: 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 05:06:00: Process for pairing-model is terminated! cat: SRX1044177.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1044177.05_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): 0 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044177.05_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 `SRX1044177.05_*.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 `SRX1044177.20_model.r'rm: cannot remove `SRX1044177.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません : 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 `SRX1044177.20_*.xls': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling rm: cannot remove `SRX1044177.20_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