Job ID = 10536487 sra ファイルのダウンロード中... Completed: 1522058K bytes transferred in 53 seconds (231411K 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 36219314 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671183/SRR6696935.sra Written 36219314 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: 00:20:04 36219314 reads; of these: 36219314 (100.00%) were paired; of these: 11678371 (32.24%) aligned concordantly 0 times 20322458 (56.11%) aligned concordantly exactly 1 time 4218485 (11.65%) aligned concordantly >1 times ---- 11678371 pairs aligned concordantly 0 times; of these: 18129 (0.16%) aligned discordantly 1 time ---- 11660242 pairs aligned 0 times concordantly or discordantly; of these: 23320484 mates make up the pairs; of these: 23132208 (99.19%) aligned 0 times 144727 (0.62%) aligned exactly 1 time 43549 (0.19%) aligned >1 times 68.07% overall alignment rate Time searching: 00:20:04 Overall time: 00:20:04 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 24 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] 17121497 / 24550294 = 0.6974 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 10:10:58: # Command line: callpeak -t SRX3671183.bam -f BAM -g 12100000 -n SRX3671183.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671183.05 # format = BAM # ChIP-seq file = ['SRX3671183.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 10:10:58: # Command line: callpeak -t SRX3671183.bam -f BAM -g 12100000 -n SRX3671183.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671183.10 # format = BAM # ChIP-seq file = ['SRX3671183.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 10:10:58: # Command line: callpeak -t SRX3671183.bam -f BAM -g 12100000 -n SRX3671183.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671183.20 # format = BAM # ChIP-seq file = ['SRX3671183.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 10:10:58: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:10:58: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:10:58: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:10:58: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:10:58: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:10:58: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:11:04: 1000000 INFO @ Thu, 05 Apr 2018 10:11:04: 1000000 INFO @ Thu, 05 Apr 2018 10:11:04: 1000000 INFO @ Thu, 05 Apr 2018 10:11:10: 2000000 INFO @ Thu, 05 Apr 2018 10:11:10: 2000000 INFO @ Thu, 05 Apr 2018 10:11:10: 2000000 INFO @ Thu, 05 Apr 2018 10:11:15: 3000000 INFO @ Thu, 05 Apr 2018 10:11:16: 3000000 INFO @ Thu, 05 Apr 2018 10:11:16: 3000000 INFO @ Thu, 05 Apr 2018 10:11:20: 4000000 INFO @ Thu, 05 Apr 2018 10:11:22: 4000000 INFO @ Thu, 05 Apr 2018 10:11:22: 4000000 INFO @ Thu, 05 Apr 2018 10:11:26: 5000000 INFO @ Thu, 05 Apr 2018 10:11:27: 5000000 INFO @ Thu, 05 Apr 2018 10:11:27: 5000000 INFO @ Thu, 05 Apr 2018 10:11:31: 6000000 INFO @ Thu, 05 Apr 2018 10:11:33: 6000000 INFO @ Thu, 05 Apr 2018 10:11:33: 6000000 INFO @ Thu, 05 Apr 2018 10:11:37: 7000000 INFO @ Thu, 05 Apr 2018 10:11:39: 7000000 INFO @ Thu, 05 Apr 2018 10:11:39: 7000000 INFO @ Thu, 05 Apr 2018 10:11:42: 8000000 INFO @ Thu, 05 Apr 2018 10:11:45: 8000000 INFO @ Thu, 05 Apr 2018 10:11:45: 8000000 INFO @ Thu, 05 Apr 2018 10:11:48: 9000000 INFO @ Thu, 05 Apr 2018 10:11:50: 9000000 INFO @ Thu, 05 Apr 2018 10:11:50: 9000000 INFO @ Thu, 05 Apr 2018 10:11:53: 10000000 INFO @ Thu, 05 Apr 2018 10:11:56: 10000000 INFO @ Thu, 05 Apr 2018 10:11:56: 10000000 INFO @ Thu, 05 Apr 2018 10:11:59: 11000000 INFO @ Thu, 05 Apr 2018 10:12:01: 11000000 INFO @ Thu, 05 Apr 2018 10:12:01: 11000000 INFO @ Thu, 05 Apr 2018 10:12:04: 12000000 INFO @ Thu, 05 Apr 2018 10:12:07: 12000000 INFO @ Thu, 05 Apr 2018 10:12:07: 12000000 INFO @ Thu, 05 Apr 2018 10:12:10: 13000000 INFO @ Thu, 05 Apr 2018 10:12:13: 13000000 INFO @ Thu, 05 Apr 2018 10:12:13: 13000000 INFO @ Thu, 05 Apr 2018 10:12:15: 14000000 INFO @ Thu, 05 Apr 2018 10:12:18: 14000000 INFO @ Thu, 05 Apr 2018 10:12:19: 14000000 INFO @ Thu, 05 Apr 2018 10:12:21: 15000000 INFO @ Thu, 05 Apr 2018 10:12:21: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:12:21: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:12:21: #1 total tags in treatment: 7425547 INFO @ Thu, 05 Apr 2018 10:12:21: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:12:21: #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 10:12:22: #1 tags after filtering in treatment: 5541903 INFO @ Thu, 05 Apr 2018 10:12:22: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 05 Apr 2018 10:12:22: #1 finished! INFO @ Thu, 05 Apr 2018 10:12:22: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:12:22: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:12:22: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:12:22: 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 10:12:22: Process for pairing-model is terminated! cat: SRX3671183.05_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 `SRX3671183.05_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 `SRX3671183.05_*.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 `SRX3671183.05_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 10:12:24: 15000000 INFO @ Thu, 05 Apr 2018 10:12:24: 15000000 INFO @ Thu, 05 Apr 2018 10:12:24: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:12:24: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:12:24: #1 total tags in treatment: 7425547 INFO @ Thu, 05 Apr 2018 10:12:24: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:12:24: #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 10:12:25: #1 tags after filtering in treatment: 5541903 INFO @ Thu, 05 Apr 2018 10:12:25: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 05 Apr 2018 10:12:25: #1 finished! INFO @ Thu, 05 Apr 2018 10:12:25: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:12:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:12:25: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:12:25: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:12:25: #1 total tags in treatment: 7425547 INFO @ Thu, 05 Apr 2018 10:12:25: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:12:25: #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 10:12:25: #1 tags after filtering in treatment: 5541903 INFO @ Thu, 05 Apr 2018 10:12:25: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 05 Apr 2018 10:12:25: #1 finished! INFO @ Thu, 05 Apr 2018 10:12:25: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:12:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:12:25: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:12:25: 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 10:12:25: Process for pairing-model is terminated! cat: SRX3671183.10_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 `SRX3671183.10_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 `SRX3671183.10_*.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 `SRX3671183.10_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 @ Thu, 05 Apr 2018 10:12:25: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:12:25: 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 10:12:25: Process for pairing-model is terminated! cat: SRX3671183.20_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 `SRX3671183.20_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 `SRX3671183.20_*.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 `SRX3671183.20_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。