Job ID = 9160006 sra ファイルのダウンロード中... Completed: 1018842K bytes transferred in 15 seconds (551727K 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 10565579 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402731/SRR5085176.sra Written 10565579 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: 00:11:41 10565579 reads; of these: 10565579 (100.00%) were paired; of these: 477434 (4.52%) aligned concordantly 0 times 7308178 (69.17%) aligned concordantly exactly 1 time 2779967 (26.31%) aligned concordantly >1 times ---- 477434 pairs aligned concordantly 0 times; of these: 35404 (7.42%) aligned discordantly 1 time ---- 442030 pairs aligned 0 times concordantly or discordantly; of these: 884060 mates make up the pairs; of these: 762469 (86.25%) aligned 0 times 74950 (8.48%) aligned exactly 1 time 46641 (5.28%) aligned >1 times 96.39% overall alignment rate Time searching: 00:11:41 Overall time: 00:11:41 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] 5487865 / 10117852 = 0.5424 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 01:54:02: # Command line: callpeak -t SRX2402731.bam -f BAM -g 12100000 -n SRX2402731.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402731.20 # format = BAM # ChIP-seq file = ['SRX2402731.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 01:54:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:54:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:54:02: # Command line: callpeak -t SRX2402731.bam -f BAM -g 12100000 -n SRX2402731.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402731.05 # format = BAM # ChIP-seq file = ['SRX2402731.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 01:54:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:54:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:54:02: # Command line: callpeak -t SRX2402731.bam -f BAM -g 12100000 -n SRX2402731.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402731.10 # format = BAM # ChIP-seq file = ['SRX2402731.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 01:54:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:54:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:54:08: 1000000 INFO @ Wed, 28 Jun 2017 01:54:08: 1000000 INFO @ Wed, 28 Jun 2017 01:54:08: 1000000 INFO @ Wed, 28 Jun 2017 01:54:14: 2000000 INFO @ Wed, 28 Jun 2017 01:54:15: 2000000 INFO @ Wed, 28 Jun 2017 01:54:15: 2000000 INFO @ Wed, 28 Jun 2017 01:54:20: 3000000 INFO @ Wed, 28 Jun 2017 01:54:21: 3000000 INFO @ Wed, 28 Jun 2017 01:54:21: 3000000 INFO @ Wed, 28 Jun 2017 01:54:26: 4000000 INFO @ Wed, 28 Jun 2017 01:54:27: 4000000 INFO @ Wed, 28 Jun 2017 01:54:27: 4000000 INFO @ Wed, 28 Jun 2017 01:54:32: 5000000 INFO @ Wed, 28 Jun 2017 01:54:33: 5000000 INFO @ Wed, 28 Jun 2017 01:54:33: 5000000 INFO @ Wed, 28 Jun 2017 01:54:38: 6000000 INFO @ Wed, 28 Jun 2017 01:54:39: 6000000 INFO @ Wed, 28 Jun 2017 01:54:39: 6000000 INFO @ Wed, 28 Jun 2017 01:54:43: 7000000 INFO @ Wed, 28 Jun 2017 01:54:45: 7000000 INFO @ Wed, 28 Jun 2017 01:54:45: 7000000 INFO @ Wed, 28 Jun 2017 01:54:49: 8000000 INFO @ Wed, 28 Jun 2017 01:54:51: 8000000 INFO @ Wed, 28 Jun 2017 01:54:51: 8000000 INFO @ Wed, 28 Jun 2017 01:54:55: 9000000 INFO @ Wed, 28 Jun 2017 01:54:57: 9000000 INFO @ Wed, 28 Jun 2017 01:54:57: 9000000 INFO @ Wed, 28 Jun 2017 01:54:58: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:54:58: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:54:58: #1 total tags in treatment: 4611559 INFO @ Wed, 28 Jun 2017 01:54:58: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:54:58: #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 01:54:58: #1 tags after filtering in treatment: 3149343 INFO @ Wed, 28 Jun 2017 01:54:58: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 28 Jun 2017 01:54:58: #1 finished! INFO @ Wed, 28 Jun 2017 01:54:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:54:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:54:58: #2 number of paired peaks: 36 WARNING @ Wed, 28 Jun 2017 01:54:58: Too few paired peaks (36) 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 01:54:58: Process for pairing-model is terminated! cat: SRX2402731.20_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 `SRX2402731.20_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 `SRX2402731.20_*.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 `SRX2402731.20_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 01:54:59: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:54:59: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:54:59: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:54:59: #1 total tags in treatment: 4611559 INFO @ Wed, 28 Jun 2017 01:54:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:54:59: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:54:59: #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 01:54:59: #1 total tags in treatment: 4611559 INFO @ Wed, 28 Jun 2017 01:54:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:54:59: #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 01:54:59: #1 tags after filtering in treatment: 3149343 INFO @ Wed, 28 Jun 2017 01:54:59: #1 tags after filtering in treatment: 3149343 INFO @ Wed, 28 Jun 2017 01:54:59: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 28 Jun 2017 01:54:59: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 28 Jun 2017 01:54:59: #1 finished! INFO @ Wed, 28 Jun 2017 01:54:59: #1 finished! INFO @ Wed, 28 Jun 2017 01:54:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:54:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:54:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:54:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:55:00: #2 number of paired peaks: 36 WARNING @ Wed, 28 Jun 2017 01:55:00: Too few paired peaks (36) 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 01:55:00: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 01:55:00: #2 number of paired peaks: 36 WARNING @ Wed, 28 Jun 2017 01:55:00: Too few paired peaks (36) 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 01:55:00: Process for pairing-model is terminated! cat: SRX2402731.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2402731.05_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) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX2402731.10_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 `SRX2402731.10_*.xls': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402731.10_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 rm: cannot remove `SRX2402731.05_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 `SRX2402731.05_*.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 `SRX2402731.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。