Job ID = 9163649 sra ファイルのダウンロード中... Completed: 586713K bytes transferred in 8 seconds (568803K 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 8674980 spots for /home/okishinya/chipatlas/results/sacCer3/SRX997165/SRR1976197.sra Written 8674980 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: 00:05:44 8674980 reads; of these: 8674980 (100.00%) were paired; of these: 1120329 (12.91%) aligned concordantly 0 times 6502629 (74.96%) aligned concordantly exactly 1 time 1052022 (12.13%) aligned concordantly >1 times ---- 1120329 pairs aligned concordantly 0 times; of these: 91608 (8.18%) aligned discordantly 1 time ---- 1028721 pairs aligned 0 times concordantly or discordantly; of these: 2057442 mates make up the pairs; of these: 1874138 (91.09%) aligned 0 times 117262 (5.70%) aligned exactly 1 time 66042 (3.21%) aligned >1 times 89.20% overall alignment rate Time searching: 00:05:44 Overall time: 00:05:44 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] 1097811 / 7574266 = 0.1449 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 11:21:58: # Command line: callpeak -t SRX997165.bam -f BAM -g 12100000 -n SRX997165.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX997165.10 # format = BAM # ChIP-seq file = ['SRX997165.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 11:21:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:21:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:21:58: # Command line: callpeak -t SRX997165.bam -f BAM -g 12100000 -n SRX997165.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX997165.05 # format = BAM # ChIP-seq file = ['SRX997165.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 11:21:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:21:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:21:58: # Command line: callpeak -t SRX997165.bam -f BAM -g 12100000 -n SRX997165.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX997165.20 # format = BAM # ChIP-seq file = ['SRX997165.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 11:21:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:21:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:22:04: 1000000 INFO @ Wed, 28 Jun 2017 11:22:05: 1000000 INFO @ Wed, 28 Jun 2017 11:22:05: 1000000 INFO @ Wed, 28 Jun 2017 11:22:11: 2000000 INFO @ Wed, 28 Jun 2017 11:22:11: 2000000 INFO @ Wed, 28 Jun 2017 11:22:11: 2000000 INFO @ Wed, 28 Jun 2017 11:22:18: 3000000 INFO @ Wed, 28 Jun 2017 11:22:18: 3000000 INFO @ Wed, 28 Jun 2017 11:22:18: 3000000 INFO @ Wed, 28 Jun 2017 11:22:24: 4000000 INFO @ Wed, 28 Jun 2017 11:22:25: 4000000 INFO @ Wed, 28 Jun 2017 11:22:25: 4000000 INFO @ Wed, 28 Jun 2017 11:22:31: 5000000 INFO @ Wed, 28 Jun 2017 11:22:32: 5000000 INFO @ Wed, 28 Jun 2017 11:22:32: 5000000 INFO @ Wed, 28 Jun 2017 11:22:38: 6000000 INFO @ Wed, 28 Jun 2017 11:22:39: 6000000 INFO @ Wed, 28 Jun 2017 11:22:39: 6000000 INFO @ Wed, 28 Jun 2017 11:22:44: 7000000 INFO @ Wed, 28 Jun 2017 11:22:46: 7000000 INFO @ Wed, 28 Jun 2017 11:22:46: 7000000 INFO @ Wed, 28 Jun 2017 11:22:51: 8000000 INFO @ Wed, 28 Jun 2017 11:22:53: 8000000 INFO @ Wed, 28 Jun 2017 11:22:53: 8000000 INFO @ Wed, 28 Jun 2017 11:22:57: 9000000 INFO @ Wed, 28 Jun 2017 11:23:00: 9000000 INFO @ Wed, 28 Jun 2017 11:23:00: 9000000 INFO @ Wed, 28 Jun 2017 11:23:04: 10000000 INFO @ Wed, 28 Jun 2017 11:23:07: 10000000 INFO @ Wed, 28 Jun 2017 11:23:07: 10000000 INFO @ Wed, 28 Jun 2017 11:23:10: 11000000 INFO @ Wed, 28 Jun 2017 11:23:14: 11000000 INFO @ Wed, 28 Jun 2017 11:23:14: 11000000 INFO @ Wed, 28 Jun 2017 11:23:17: 12000000 INFO @ Wed, 28 Jun 2017 11:23:21: 12000000 INFO @ Wed, 28 Jun 2017 11:23:21: 12000000 INFO @ Wed, 28 Jun 2017 11:23:24: 13000000 INFO @ Wed, 28 Jun 2017 11:23:25: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:23:25: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:23:25: #1 total tags in treatment: 6456998 INFO @ Wed, 28 Jun 2017 11:23:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:23:25: #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 11:23:26: #1 tags after filtering in treatment: 3665646 INFO @ Wed, 28 Jun 2017 11:23:26: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 11:23:26: #1 finished! INFO @ Wed, 28 Jun 2017 11:23:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:23:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:23:26: #2 number of paired peaks: 1 WARNING @ Wed, 28 Jun 2017 11:23:26: Too few paired peaks (1) 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 11:23:26: Process for pairing-model is terminated! cat: SRX997165.10_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 `SRX997165.10_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 `SRX997165.10_*.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 `SRX997165.10_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 11:23:28: 13000000 INFO @ Wed, 28 Jun 2017 11:23:28: 13000000 INFO @ Wed, 28 Jun 2017 11:23:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:23:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:23:29: #1 total tags in treatment: 6456998 INFO @ Wed, 28 Jun 2017 11:23:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:23:29: #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 11:23:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:23:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:23:29: #1 total tags in treatment: 6456998 INFO @ Wed, 28 Jun 2017 11:23:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:23:29: #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 11:23:30: #1 tags after filtering in treatment: 3665646 INFO @ Wed, 28 Jun 2017 11:23:30: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 11:23:30: #1 finished! INFO @ Wed, 28 Jun 2017 11:23:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:23:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:23:30: #1 tags after filtering in treatment: 3665646 INFO @ Wed, 28 Jun 2017 11:23:30: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 11:23:30: #1 finished! INFO @ Wed, 28 Jun 2017 11:23:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:23:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:23:30: #2 number of paired peaks: 1 WARNING @ Wed, 28 Jun 2017 11:23:30: Too few paired peaks (1) 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 11:23:30: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 11:23:30: #2 number of paired peaks: 1 WARNING @ Wed, 28 Jun 2017 11:23:30: Too few paired peaks (1) 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 11:23:30: Process for pairing-model is terminated! cat: SRX997165.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX997165.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX997165.20_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 `SRX997165.20_*.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 `SRX997165.20_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 rm: cannot remove `SRX997165.05_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 `SRX997165.05_*.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 `SRX997165.05_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。