Job ID = 9160016 sra ファイルのダウンロード中... Completed: 1094793K bytes transferred in 14 seconds (628264K 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 10600591 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402741/SRR5085186.sra Written 10600591 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: 00:12:04 10600591 reads; of these: 10600591 (100.00%) were paired; of these: 255039 (2.41%) aligned concordantly 0 times 9268076 (87.43%) aligned concordantly exactly 1 time 1077476 (10.16%) aligned concordantly >1 times ---- 255039 pairs aligned concordantly 0 times; of these: 42689 (16.74%) aligned discordantly 1 time ---- 212350 pairs aligned 0 times concordantly or discordantly; of these: 424700 mates make up the pairs; of these: 370525 (87.24%) aligned 0 times 38802 (9.14%) aligned exactly 1 time 15373 (3.62%) aligned >1 times 98.25% overall alignment rate Time searching: 00:12:04 Overall time: 00:12:04 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 12 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] 171060 / 10381921 = 0.0165 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 01:59:02: # Command line: callpeak -t SRX2402741.bam -f BAM -g 12100000 -n SRX2402741.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402741.10 # format = BAM # ChIP-seq file = ['SRX2402741.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 01:59:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:59:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:59:02: # Command line: callpeak -t SRX2402741.bam -f BAM -g 12100000 -n SRX2402741.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402741.20 # format = BAM # ChIP-seq file = ['SRX2402741.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 01:59:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:59:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:59:02: # Command line: callpeak -t SRX2402741.bam -f BAM -g 12100000 -n SRX2402741.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402741.05 # format = BAM # ChIP-seq file = ['SRX2402741.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 01:59:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:59:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:59:08: 1000000 INFO @ Wed, 28 Jun 2017 01:59:08: 1000000 INFO @ Wed, 28 Jun 2017 01:59:08: 1000000 INFO @ Wed, 28 Jun 2017 01:59:15: 2000000 INFO @ Wed, 28 Jun 2017 01:59:15: 2000000 INFO @ Wed, 28 Jun 2017 01:59:15: 2000000 INFO @ Wed, 28 Jun 2017 01:59:21: 3000000 INFO @ Wed, 28 Jun 2017 01:59:21: 3000000 INFO @ Wed, 28 Jun 2017 01:59:21: 3000000 INFO @ Wed, 28 Jun 2017 01:59:27: 4000000 INFO @ Wed, 28 Jun 2017 01:59:28: 4000000 INFO @ Wed, 28 Jun 2017 01:59:28: 4000000 INFO @ Wed, 28 Jun 2017 01:59:33: 5000000 INFO @ Wed, 28 Jun 2017 01:59:35: 5000000 INFO @ Wed, 28 Jun 2017 01:59:35: 5000000 INFO @ Wed, 28 Jun 2017 01:59:39: 6000000 INFO @ Wed, 28 Jun 2017 01:59:41: 6000000 INFO @ Wed, 28 Jun 2017 01:59:41: 6000000 INFO @ Wed, 28 Jun 2017 01:59:46: 7000000 INFO @ Wed, 28 Jun 2017 01:59:47: 7000000 INFO @ Wed, 28 Jun 2017 01:59:47: 7000000 INFO @ Wed, 28 Jun 2017 01:59:52: 8000000 INFO @ Wed, 28 Jun 2017 01:59:54: 8000000 INFO @ Wed, 28 Jun 2017 01:59:54: 8000000 INFO @ Wed, 28 Jun 2017 01:59:58: 9000000 INFO @ Wed, 28 Jun 2017 02:00:00: 9000000 INFO @ Wed, 28 Jun 2017 02:00:01: 9000000 INFO @ Wed, 28 Jun 2017 02:00:06: 10000000 INFO @ Wed, 28 Jun 2017 02:00:07: 10000000 INFO @ Wed, 28 Jun 2017 02:00:10: 10000000 INFO @ Wed, 28 Jun 2017 02:00:13: 11000000 INFO @ Wed, 28 Jun 2017 02:00:14: 11000000 INFO @ Wed, 28 Jun 2017 02:00:19: 11000000 INFO @ Wed, 28 Jun 2017 02:00:21: 12000000 INFO @ Wed, 28 Jun 2017 02:00:21: 12000000 INFO @ Wed, 28 Jun 2017 02:00:28: 13000000 INFO @ Wed, 28 Jun 2017 02:00:28: 12000000 INFO @ Wed, 28 Jun 2017 02:00:29: 13000000 INFO @ Wed, 28 Jun 2017 02:00:34: 14000000 INFO @ Wed, 28 Jun 2017 02:00:35: 13000000 INFO @ Wed, 28 Jun 2017 02:00:36: 14000000 INFO @ Wed, 28 Jun 2017 02:00:40: 15000000 INFO @ Wed, 28 Jun 2017 02:00:42: 14000000 INFO @ Wed, 28 Jun 2017 02:00:43: 15000000 INFO @ Wed, 28 Jun 2017 02:00:46: 16000000 INFO @ Wed, 28 Jun 2017 02:00:49: 15000000 INFO @ Wed, 28 Jun 2017 02:00:49: 16000000 INFO @ Wed, 28 Jun 2017 02:00:52: 17000000 INFO @ Wed, 28 Jun 2017 02:00:55: 17000000 INFO @ Wed, 28 Jun 2017 02:00:56: 16000000 INFO @ Wed, 28 Jun 2017 02:00:59: 18000000 INFO @ Wed, 28 Jun 2017 02:01:02: 18000000 INFO @ Wed, 28 Jun 2017 02:01:02: 17000000 INFO @ Wed, 28 Jun 2017 02:01:05: 19000000 INFO @ Wed, 28 Jun 2017 02:01:08: 19000000 INFO @ Wed, 28 Jun 2017 02:01:09: 18000000 INFO @ Wed, 28 Jun 2017 02:01:11: 20000000 INFO @ Wed, 28 Jun 2017 02:01:14: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:01:14: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:01:14: #1 total tags in treatment: 10174784 INFO @ Wed, 28 Jun 2017 02:01:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:01:14: #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 02:01:14: #1 tags after filtering in treatment: 6283286 INFO @ Wed, 28 Jun 2017 02:01:14: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 02:01:14: #1 finished! INFO @ Wed, 28 Jun 2017 02:01:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:01:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:01:15: 20000000 INFO @ Wed, 28 Jun 2017 02:01:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:01:15: 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 02:01:15: Process for pairing-model is terminated! cat: SRX2402741.05_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 `SRX2402741.05_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 `SRX2402741.05_*.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 `SRX2402741.05_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 02:01:16: 19000000 INFO @ Wed, 28 Jun 2017 02:01:18: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:01:18: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:01:18: #1 total tags in treatment: 10174784 INFO @ Wed, 28 Jun 2017 02:01:18: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:01:18: #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 02:01:18: #1 tags after filtering in treatment: 6283286 INFO @ Wed, 28 Jun 2017 02:01:18: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 02:01:18: #1 finished! INFO @ Wed, 28 Jun 2017 02:01:18: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:01:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:01:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:01:18: 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 02:01:18: Process for pairing-model is terminated! cat: SRX2402741.10_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 `SRX2402741.10_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 `SRX2402741.10_*.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 `SRX2402741.10_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 02:01:22: 20000000 INFO @ Wed, 28 Jun 2017 02:01:25: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:01:25: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:01:25: #1 total tags in treatment: 10174784 INFO @ Wed, 28 Jun 2017 02:01:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:01:25: #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 02:01:25: #1 tags after filtering in treatment: 6283286 INFO @ Wed, 28 Jun 2017 02:01:25: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 02:01:25: #1 finished! INFO @ Wed, 28 Jun 2017 02:01:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:01:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:01:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:01:26: 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 02:01:26: Process for pairing-model is terminated! cat: SRX2402741.20_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 `SRX2402741.20_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 `SRX2402741.20_*.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 `SRX2402741.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。