Job ID = 9160171 sra ファイルのダウンロード中... Completed: 825301K bytes transferred in 49 seconds (136901K 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 19517941 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831018/SRR5572332.sra Written 19517941 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: 00:16:16 19517941 reads; of these: 19517941 (100.00%) were paired; of these: 900052 (4.61%) aligned concordantly 0 times 11121163 (56.98%) aligned concordantly exactly 1 time 7496726 (38.41%) aligned concordantly >1 times ---- 900052 pairs aligned concordantly 0 times; of these: 274947 (30.55%) aligned discordantly 1 time ---- 625105 pairs aligned 0 times concordantly or discordantly; of these: 1250210 mates make up the pairs; of these: 546449 (43.71%) aligned 0 times 117985 (9.44%) aligned exactly 1 time 585776 (46.85%) aligned >1 times 98.60% overall alignment rate Time searching: 00:16:16 Overall time: 00:16:16 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] 7027691 / 18858209 = 0.3727 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 02:25:06: # Command line: callpeak -t SRX2831018.bam -f BAM -g 12100000 -n SRX2831018.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2831018.20 # format = BAM # ChIP-seq file = ['SRX2831018.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 02:25:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:25:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:25:06: # Command line: callpeak -t SRX2831018.bam -f BAM -g 12100000 -n SRX2831018.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2831018.05 # format = BAM # ChIP-seq file = ['SRX2831018.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 02:25:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:25:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:25:06: # Command line: callpeak -t SRX2831018.bam -f BAM -g 12100000 -n SRX2831018.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2831018.10 # format = BAM # ChIP-seq file = ['SRX2831018.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 02:25:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:25:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:25:12: 1000000 INFO @ Wed, 28 Jun 2017 02:25:12: 1000000 INFO @ Wed, 28 Jun 2017 02:25:12: 1000000 INFO @ Wed, 28 Jun 2017 02:25:19: 2000000 INFO @ Wed, 28 Jun 2017 02:25:20: 2000000 INFO @ Wed, 28 Jun 2017 02:25:20: 2000000 INFO @ Wed, 28 Jun 2017 02:25:27: 3000000 INFO @ Wed, 28 Jun 2017 02:25:27: 3000000 INFO @ Wed, 28 Jun 2017 02:25:28: 3000000 INFO @ Wed, 28 Jun 2017 02:25:34: 4000000 INFO @ Wed, 28 Jun 2017 02:25:35: 4000000 INFO @ Wed, 28 Jun 2017 02:25:36: 4000000 INFO @ Wed, 28 Jun 2017 02:25:42: 5000000 INFO @ Wed, 28 Jun 2017 02:25:43: 5000000 INFO @ Wed, 28 Jun 2017 02:25:44: 5000000 INFO @ Wed, 28 Jun 2017 02:25:49: 6000000 INFO @ Wed, 28 Jun 2017 02:25:51: 6000000 INFO @ Wed, 28 Jun 2017 02:25:52: 6000000 INFO @ Wed, 28 Jun 2017 02:25:56: 7000000 INFO @ Wed, 28 Jun 2017 02:25:59: 7000000 INFO @ Wed, 28 Jun 2017 02:26:00: 7000000 INFO @ Wed, 28 Jun 2017 02:26:04: 8000000 INFO @ Wed, 28 Jun 2017 02:26:06: 8000000 INFO @ Wed, 28 Jun 2017 02:26:08: 8000000 INFO @ Wed, 28 Jun 2017 02:26:10: 9000000 INFO @ Wed, 28 Jun 2017 02:26:14: 9000000 INFO @ Wed, 28 Jun 2017 02:26:16: 9000000 INFO @ Wed, 28 Jun 2017 02:26:16: 10000000 INFO @ Wed, 28 Jun 2017 02:26:21: 10000000 INFO @ Wed, 28 Jun 2017 02:26:23: 11000000 INFO @ Wed, 28 Jun 2017 02:26:23: 10000000 INFO @ Wed, 28 Jun 2017 02:26:27: 11000000 INFO @ Wed, 28 Jun 2017 02:26:29: 12000000 INFO @ Wed, 28 Jun 2017 02:26:30: 11000000 INFO @ Wed, 28 Jun 2017 02:26:33: 12000000 INFO @ Wed, 28 Jun 2017 02:26:35: 13000000 INFO @ Wed, 28 Jun 2017 02:26:36: 12000000 INFO @ Wed, 28 Jun 2017 02:26:39: 13000000 INFO @ Wed, 28 Jun 2017 02:26:41: 14000000 INFO @ Wed, 28 Jun 2017 02:26:42: 13000000 INFO @ Wed, 28 Jun 2017 02:26:46: 14000000 INFO @ Wed, 28 Jun 2017 02:26:46: 15000000 INFO @ Wed, 28 Jun 2017 02:26:49: 14000000 INFO @ Wed, 28 Jun 2017 02:26:52: 15000000 INFO @ Wed, 28 Jun 2017 02:26:52: 16000000 INFO @ Wed, 28 Jun 2017 02:26:55: 15000000 INFO @ Wed, 28 Jun 2017 02:26:58: 17000000 INFO @ Wed, 28 Jun 2017 02:26:58: 16000000 INFO @ Wed, 28 Jun 2017 02:27:02: 16000000 INFO @ Wed, 28 Jun 2017 02:27:03: 18000000 INFO @ Wed, 28 Jun 2017 02:27:04: 17000000 INFO @ Wed, 28 Jun 2017 02:27:08: 17000000 INFO @ Wed, 28 Jun 2017 02:27:09: 19000000 INFO @ Wed, 28 Jun 2017 02:27:10: 18000000 INFO @ Wed, 28 Jun 2017 02:27:14: 18000000 INFO @ Wed, 28 Jun 2017 02:27:15: 20000000 INFO @ Wed, 28 Jun 2017 02:27:16: 19000000 INFO @ Wed, 28 Jun 2017 02:27:20: 21000000 INFO @ Wed, 28 Jun 2017 02:27:21: 19000000 INFO @ Wed, 28 Jun 2017 02:27:22: 20000000 INFO @ Wed, 28 Jun 2017 02:27:26: 22000000 INFO @ Wed, 28 Jun 2017 02:27:27: 20000000 INFO @ Wed, 28 Jun 2017 02:27:28: 21000000 INFO @ Wed, 28 Jun 2017 02:27:32: 23000000 INFO @ Wed, 28 Jun 2017 02:27:33: 21000000 INFO @ Wed, 28 Jun 2017 02:27:34: 22000000 INFO @ Wed, 28 Jun 2017 02:27:37: 24000000 INFO @ Wed, 28 Jun 2017 02:27:40: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:27:40: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:27:40: #1 total tags in treatment: 11638812 INFO @ Wed, 28 Jun 2017 02:27:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:27:40: #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 02:27:40: #1 tags after filtering in treatment: 6603979 INFO @ Wed, 28 Jun 2017 02:27:40: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 02:27:40: #1 finished! INFO @ Wed, 28 Jun 2017 02:27:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:27:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:27:40: 23000000 INFO @ Wed, 28 Jun 2017 02:27:40: 22000000 INFO @ Wed, 28 Jun 2017 02:27:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:27:41: 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 02:27:41: Process for pairing-model is terminated! cat: SRX2831018.20_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 `SRX2831018.20_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 `SRX2831018.20_*.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 `SRX2831018.20_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 02:27:46: 24000000 INFO @ Wed, 28 Jun 2017 02:27:47: 23000000 INFO @ Wed, 28 Jun 2017 02:27:49: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:27:49: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:27:49: #1 total tags in treatment: 11638812 INFO @ Wed, 28 Jun 2017 02:27:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:27:49: #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 02:27:49: #1 tags after filtering in treatment: 6603979 INFO @ Wed, 28 Jun 2017 02:27:49: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 02:27:49: #1 finished! INFO @ Wed, 28 Jun 2017 02:27:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:27:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:27:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:27:49: 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 02:27:49: Process for pairing-model is terminated! cat: SRX2831018.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831018.05_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 `SRX2831018.05_*.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 `SRX2831018.05_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 02:27:53: 24000000 INFO @ Wed, 28 Jun 2017 02:27:55: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:27:55: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:27:55: #1 total tags in treatment: 11638812 INFO @ Wed, 28 Jun 2017 02:27:55: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:27:55: #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 02:27:56: #1 tags after filtering in treatment: 6603979 INFO @ Wed, 28 Jun 2017 02:27:56: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 02:27:56: #1 finished! INFO @ Wed, 28 Jun 2017 02:27:56: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:27:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:27:56: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:27:56: 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 02:27:56: Process for pairing-model is terminated! cat: SRX2831018.10_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 `SRX2831018.10_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 `SRX2831018.10_*.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 `SRX2831018.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。