Job ID = 9161779 sra ファイルのダウンロード中... Completed: 485795K bytes transferred in 9 seconds (412146K 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 7608566 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044165/SRR2045643.sra Written 7608566 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: 00:06:11 7608566 reads; of these: 7608566 (100.00%) were paired; of these: 662534 (8.71%) aligned concordantly 0 times 5941680 (78.09%) aligned concordantly exactly 1 time 1004352 (13.20%) aligned concordantly >1 times ---- 662534 pairs aligned concordantly 0 times; of these: 216146 (32.62%) aligned discordantly 1 time ---- 446388 pairs aligned 0 times concordantly or discordantly; of these: 892776 mates make up the pairs; of these: 710632 (79.60%) aligned 0 times 79730 (8.93%) aligned exactly 1 time 102414 (11.47%) aligned >1 times 95.33% overall alignment rate Time searching: 00:06:12 Overall time: 00:06:12 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 8 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] 2155445 / 7107166 = 0.3033 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 04:44:06: # Command line: callpeak -t SRX1044165.bam -f BAM -g 12100000 -n SRX1044165.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044165.05 # format = BAM # ChIP-seq file = ['SRX1044165.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 04:44:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:06: # Command line: callpeak -t SRX1044165.bam -f BAM -g 12100000 -n SRX1044165.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044165.10 # format = BAM # ChIP-seq file = ['SRX1044165.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 04:44:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:06: # Command line: callpeak -t SRX1044165.bam -f BAM -g 12100000 -n SRX1044165.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044165.20 # format = BAM # ChIP-seq file = ['SRX1044165.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 04:44:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:13: 1000000 INFO @ Wed, 28 Jun 2017 04:44:13: 1000000 INFO @ Wed, 28 Jun 2017 04:44:13: 1000000 INFO @ Wed, 28 Jun 2017 04:44:20: 2000000 INFO @ Wed, 28 Jun 2017 04:44:20: 2000000 INFO @ Wed, 28 Jun 2017 04:44:20: 2000000 INFO @ Wed, 28 Jun 2017 04:44:26: 3000000 INFO @ Wed, 28 Jun 2017 04:44:26: 3000000 INFO @ Wed, 28 Jun 2017 04:44:26: 3000000 INFO @ Wed, 28 Jun 2017 04:44:34: 4000000 INFO @ Wed, 28 Jun 2017 04:44:34: 4000000 INFO @ Wed, 28 Jun 2017 04:44:34: 4000000 INFO @ Wed, 28 Jun 2017 04:44:43: 5000000 INFO @ Wed, 28 Jun 2017 04:44:43: 5000000 INFO @ Wed, 28 Jun 2017 04:44:43: 5000000 INFO @ Wed, 28 Jun 2017 04:44:52: 6000000 INFO @ Wed, 28 Jun 2017 04:44:52: 6000000 INFO @ Wed, 28 Jun 2017 04:44:52: 6000000 INFO @ Wed, 28 Jun 2017 04:45:01: 7000000 INFO @ Wed, 28 Jun 2017 04:45:01: 7000000 INFO @ Wed, 28 Jun 2017 04:45:01: 7000000 INFO @ Wed, 28 Jun 2017 04:45:10: 8000000 INFO @ Wed, 28 Jun 2017 04:45:10: 8000000 INFO @ Wed, 28 Jun 2017 04:45:10: 8000000 INFO @ Wed, 28 Jun 2017 04:45:19: 9000000 INFO @ Wed, 28 Jun 2017 04:45:19: 9000000 INFO @ Wed, 28 Jun 2017 04:45:20: 9000000 INFO @ Wed, 28 Jun 2017 04:45:28: 10000000 INFO @ Wed, 28 Jun 2017 04:45:28: 10000000 INFO @ Wed, 28 Jun 2017 04:45:30: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:45:30: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:45:30: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:45:30: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:45:30: #1 total tags in treatment: 4834806 INFO @ Wed, 28 Jun 2017 04:45:30: #1 total tags in treatment: 4834806 INFO @ Wed, 28 Jun 2017 04:45:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:45:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:45:30: #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 04:45:30: #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 04:45:30: 10000000 INFO @ Wed, 28 Jun 2017 04:45:30: #1 tags after filtering in treatment: 3922101 INFO @ Wed, 28 Jun 2017 04:45:30: #1 tags after filtering in treatment: 3922101 INFO @ Wed, 28 Jun 2017 04:45:30: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 04:45:30: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 04:45:30: #1 finished! INFO @ Wed, 28 Jun 2017 04:45:30: #1 finished! INFO @ Wed, 28 Jun 2017 04:45:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:45:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:45:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:45:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:45:30: #2 number of paired peaks: 48 WARNING @ Wed, 28 Jun 2017 04:45:30: Too few paired peaks (48) 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 04:45:30: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:45:30: #2 number of paired peaks: 48 WARNING @ Wed, 28 Jun 2017 04:45:30: Too few paired peaks (48) 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 04:45:30: Process for pairing-model is terminated! cat: SRX1044165.20_peaks.narrowPeakcat: SRX1044165.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません : 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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044165.20_model.r'rm: cannot remove `SRX1044165.05_model.r': そのようなファイルやディレクトリはありません : 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 `SRX1044165.20_*.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 `SRX1044165.05_*.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 `SRX1044165.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044165.05_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 CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 04:45:31: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:45:31: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:45:31: #1 total tags in treatment: 4834806 INFO @ Wed, 28 Jun 2017 04:45:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:45:31: #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 04:45:31: #1 tags after filtering in treatment: 3922101 INFO @ Wed, 28 Jun 2017 04:45:31: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 04:45:31: #1 finished! INFO @ Wed, 28 Jun 2017 04:45:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:45:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:45:31: #2 number of paired peaks: 48 WARNING @ Wed, 28 Jun 2017 04:45:31: Too few paired peaks (48) 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 04:45:31: Process for pairing-model is terminated! cat: SRX1044165.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044165.10_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 `SRX1044165.10_*.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 `SRX1044165.10_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。