Job ID = 10536414 sra ファイルのダウンロード中... Completed: 1434506K bytes transferred in 27 seconds (425559K bits/sec), in 1 file. 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 31534406 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671156/SRR6696908.sra Written 31534406 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:24:25 31534406 reads; of these: 31534406 (100.00%) were paired; of these: 1305436 (4.14%) aligned concordantly 0 times 25264992 (80.12%) aligned concordantly exactly 1 time 4963978 (15.74%) aligned concordantly >1 times ---- 1305436 pairs aligned concordantly 0 times; of these: 60324 (4.62%) aligned discordantly 1 time ---- 1245112 pairs aligned 0 times concordantly or discordantly; of these: 2490224 mates make up the pairs; of these: 2053895 (82.48%) aligned 0 times 330938 (13.29%) aligned exactly 1 time 105391 (4.23%) aligned >1 times 96.74% overall alignment rate Time searching: 00:24:25 Overall time: 00:24:25 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 28 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] 23045225 / 30246216 = 0.7619 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 @ Thu, 05 Apr 2018 09:55:01: # Command line: callpeak -t SRX3671156.bam -f BAM -g 12100000 -n SRX3671156.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671156.10 # format = BAM # ChIP-seq file = ['SRX3671156.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 @ Thu, 05 Apr 2018 09:55:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:55:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:55:01: # Command line: callpeak -t SRX3671156.bam -f BAM -g 12100000 -n SRX3671156.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671156.20 # format = BAM # ChIP-seq file = ['SRX3671156.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 @ Thu, 05 Apr 2018 09:55:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:55:01: # Command line: callpeak -t SRX3671156.bam -f BAM -g 12100000 -n SRX3671156.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671156.05 # format = BAM # ChIP-seq file = ['SRX3671156.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 @ Thu, 05 Apr 2018 09:55:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:55:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:55:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:55:07: 1000000 INFO @ Thu, 05 Apr 2018 09:55:07: 1000000 INFO @ Thu, 05 Apr 2018 09:55:07: 1000000 INFO @ Thu, 05 Apr 2018 09:55:12: 2000000 INFO @ Thu, 05 Apr 2018 09:55:13: 2000000 INFO @ Thu, 05 Apr 2018 09:55:13: 2000000 INFO @ Thu, 05 Apr 2018 09:55:18: 3000000 INFO @ Thu, 05 Apr 2018 09:55:19: 3000000 INFO @ Thu, 05 Apr 2018 09:55:19: 3000000 INFO @ Thu, 05 Apr 2018 09:55:24: 4000000 INFO @ Thu, 05 Apr 2018 09:55:25: 4000000 INFO @ Thu, 05 Apr 2018 09:55:25: 4000000 INFO @ Thu, 05 Apr 2018 09:55:30: 5000000 INFO @ Thu, 05 Apr 2018 09:55:30: 5000000 INFO @ Thu, 05 Apr 2018 09:55:31: 5000000 INFO @ Thu, 05 Apr 2018 09:55:35: 6000000 INFO @ Thu, 05 Apr 2018 09:55:36: 6000000 INFO @ Thu, 05 Apr 2018 09:55:37: 6000000 INFO @ Thu, 05 Apr 2018 09:55:41: 7000000 INFO @ Thu, 05 Apr 2018 09:55:42: 7000000 INFO @ Thu, 05 Apr 2018 09:55:43: 7000000 INFO @ Thu, 05 Apr 2018 09:55:47: 8000000 INFO @ Thu, 05 Apr 2018 09:55:48: 8000000 INFO @ Thu, 05 Apr 2018 09:55:49: 8000000 INFO @ Thu, 05 Apr 2018 09:55:52: 9000000 INFO @ Thu, 05 Apr 2018 09:55:54: 9000000 INFO @ Thu, 05 Apr 2018 09:55:55: 9000000 INFO @ Thu, 05 Apr 2018 09:55:58: 10000000 INFO @ Thu, 05 Apr 2018 09:56:01: 10000000 INFO @ Thu, 05 Apr 2018 09:56:02: 10000000 INFO @ Thu, 05 Apr 2018 09:56:04: 11000000 INFO @ Thu, 05 Apr 2018 09:56:07: 11000000 INFO @ Thu, 05 Apr 2018 09:56:08: 11000000 INFO @ Thu, 05 Apr 2018 09:56:10: 12000000 INFO @ Thu, 05 Apr 2018 09:56:13: 12000000 INFO @ Thu, 05 Apr 2018 09:56:14: 12000000 INFO @ Thu, 05 Apr 2018 09:56:15: 13000000 INFO @ Thu, 05 Apr 2018 09:56:19: 13000000 INFO @ Thu, 05 Apr 2018 09:56:21: 13000000 INFO @ Thu, 05 Apr 2018 09:56:21: 14000000 INFO @ Thu, 05 Apr 2018 09:56:25: 14000000 INFO @ Thu, 05 Apr 2018 09:56:26: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:56:26: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:56:26: #1 total tags in treatment: 7190478 INFO @ Thu, 05 Apr 2018 09:56:26: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:56:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:56:26: #1 tags after filtering in treatment: 5336495 INFO @ Thu, 05 Apr 2018 09:56:26: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:56:26: #1 finished! INFO @ Thu, 05 Apr 2018 09:56:26: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:56:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:56:27: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:56:27: 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 @ Thu, 05 Apr 2018 09:56:27: Process for pairing-model is terminated! cat: SRX3671156.20_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 `SRX3671156.20_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 `SRX3671156.20_*.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 `SRX3671156.20_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 @ Thu, 05 Apr 2018 09:56:27: 14000000 INFO @ Thu, 05 Apr 2018 09:56:30: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:56:30: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:56:30: #1 total tags in treatment: 7190478 INFO @ Thu, 05 Apr 2018 09:56:30: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:56:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:56:31: #1 tags after filtering in treatment: 5336495 INFO @ Thu, 05 Apr 2018 09:56:31: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:56:31: #1 finished! INFO @ Thu, 05 Apr 2018 09:56:31: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:56:31: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:56:31: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:56:31: 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 @ Thu, 05 Apr 2018 09:56:31: Process for pairing-model is terminated! cat: SRX3671156.05_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 `SRX3671156.05_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 `SRX3671156.05_*.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 `SRX3671156.05_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 @ Thu, 05 Apr 2018 09:56:32: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:56:32: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:56:32: #1 total tags in treatment: 7190478 INFO @ Thu, 05 Apr 2018 09:56:32: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:56:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:56:32: #1 tags after filtering in treatment: 5336495 INFO @ Thu, 05 Apr 2018 09:56:32: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:56:32: #1 finished! INFO @ Thu, 05 Apr 2018 09:56:32: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:56:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:56:33: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:56:33: 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 @ Thu, 05 Apr 2018 09:56:33: Process for pairing-model is terminated! cat: SRX3671156.10_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 `SRX3671156.10_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 `SRX3671156.10_*.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 `SRX3671156.10_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。