Job ID = 9160020 sra ファイルのダウンロード中... Completed: 965587K bytes transferred in 13 seconds (592130K 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 9319503 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402745/SRR5085190.sra Written 9319503 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: 00:10:14 9319503 reads; of these: 9319503 (100.00%) were paired; of these: 228534 (2.45%) aligned concordantly 0 times 8262724 (88.66%) aligned concordantly exactly 1 time 828245 (8.89%) aligned concordantly >1 times ---- 228534 pairs aligned concordantly 0 times; of these: 43668 (19.11%) aligned discordantly 1 time ---- 184866 pairs aligned 0 times concordantly or discordantly; of these: 369732 mates make up the pairs; of these: 320751 (86.75%) aligned 0 times 36377 (9.84%) aligned exactly 1 time 12604 (3.41%) aligned >1 times 98.28% overall alignment rate Time searching: 00:10:14 Overall time: 00:10:14 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] 99608 / 9127906 = 0.0109 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 01:57:44: # Command line: callpeak -t SRX2402745.bam -f BAM -g 12100000 -n SRX2402745.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402745.10 # format = BAM # ChIP-seq file = ['SRX2402745.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 01:57:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:57:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:57:44: # Command line: callpeak -t SRX2402745.bam -f BAM -g 12100000 -n SRX2402745.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402745.05 # format = BAM # ChIP-seq file = ['SRX2402745.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 01:57:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:57:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:57:44: # Command line: callpeak -t SRX2402745.bam -f BAM -g 12100000 -n SRX2402745.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402745.20 # format = BAM # ChIP-seq file = ['SRX2402745.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 01:57:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:57:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:57:51: 1000000 INFO @ Wed, 28 Jun 2017 01:57:51: 1000000 INFO @ Wed, 28 Jun 2017 01:57:51: 1000000 INFO @ Wed, 28 Jun 2017 01:57:58: 2000000 INFO @ Wed, 28 Jun 2017 01:57:59: 2000000 INFO @ Wed, 28 Jun 2017 01:57:59: 2000000 INFO @ Wed, 28 Jun 2017 01:58:05: 3000000 INFO @ Wed, 28 Jun 2017 01:58:06: 3000000 INFO @ Wed, 28 Jun 2017 01:58:06: 3000000 INFO @ Wed, 28 Jun 2017 01:58:12: 4000000 INFO @ Wed, 28 Jun 2017 01:58:13: 4000000 INFO @ Wed, 28 Jun 2017 01:58:13: 4000000 INFO @ Wed, 28 Jun 2017 01:58:19: 5000000 INFO @ Wed, 28 Jun 2017 01:58:20: 5000000 INFO @ Wed, 28 Jun 2017 01:58:21: 5000000 INFO @ Wed, 28 Jun 2017 01:58:26: 6000000 INFO @ Wed, 28 Jun 2017 01:58:26: 6000000 INFO @ Wed, 28 Jun 2017 01:58:28: 6000000 INFO @ Wed, 28 Jun 2017 01:58:33: 7000000 INFO @ Wed, 28 Jun 2017 01:58:33: 7000000 INFO @ Wed, 28 Jun 2017 01:58:35: 7000000 INFO @ Wed, 28 Jun 2017 01:58:40: 8000000 INFO @ Wed, 28 Jun 2017 01:58:40: 8000000 INFO @ Wed, 28 Jun 2017 01:58:43: 8000000 INFO @ Wed, 28 Jun 2017 01:58:47: 9000000 INFO @ Wed, 28 Jun 2017 01:58:48: 9000000 INFO @ Wed, 28 Jun 2017 01:58:50: 9000000 INFO @ Wed, 28 Jun 2017 01:58:53: 10000000 INFO @ Wed, 28 Jun 2017 01:58:55: 10000000 INFO @ Wed, 28 Jun 2017 01:58:57: 10000000 INFO @ Wed, 28 Jun 2017 01:59:00: 11000000 INFO @ Wed, 28 Jun 2017 01:59:02: 11000000 INFO @ Wed, 28 Jun 2017 01:59:05: 11000000 INFO @ Wed, 28 Jun 2017 01:59:07: 12000000 INFO @ Wed, 28 Jun 2017 01:59:09: 12000000 INFO @ Wed, 28 Jun 2017 01:59:12: 12000000 INFO @ Wed, 28 Jun 2017 01:59:14: 13000000 INFO @ Wed, 28 Jun 2017 01:59:16: 13000000 INFO @ Wed, 28 Jun 2017 01:59:19: 13000000 INFO @ Wed, 28 Jun 2017 01:59:20: 14000000 INFO @ Wed, 28 Jun 2017 01:59:23: 14000000 INFO @ Wed, 28 Jun 2017 01:59:27: 14000000 INFO @ Wed, 28 Jun 2017 01:59:27: 15000000 INFO @ Wed, 28 Jun 2017 01:59:30: 15000000 INFO @ Wed, 28 Jun 2017 01:59:34: 15000000 INFO @ Wed, 28 Jun 2017 01:59:34: 16000000 INFO @ Wed, 28 Jun 2017 01:59:37: 16000000 INFO @ Wed, 28 Jun 2017 01:59:41: 17000000 INFO @ Wed, 28 Jun 2017 01:59:41: 16000000 INFO @ Wed, 28 Jun 2017 01:59:44: 17000000 INFO @ Wed, 28 Jun 2017 01:59:47: 18000000 INFO @ Wed, 28 Jun 2017 01:59:48: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:59:48: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:59:48: #1 total tags in treatment: 8991548 INFO @ Wed, 28 Jun 2017 01:59:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:59:48: #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 01:59:49: #1 tags after filtering in treatment: 6048580 INFO @ Wed, 28 Jun 2017 01:59:49: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 01:59:49: #1 finished! INFO @ Wed, 28 Jun 2017 01:59:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:59:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:59:49: 17000000 INFO @ Wed, 28 Jun 2017 01:59:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:59:49: 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 @ Wed, 28 Jun 2017 01:59:49: Process for pairing-model is terminated! cat: SRX2402745.10_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 `SRX2402745.10_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 `SRX2402745.10_*.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 `SRX2402745.10_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 01:59:51: 18000000 INFO @ Wed, 28 Jun 2017 01:59:52: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:59:52: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:59:52: #1 total tags in treatment: 8991548 INFO @ Wed, 28 Jun 2017 01:59:52: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:59:52: #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 01:59:52: #1 tags after filtering in treatment: 6048580 INFO @ Wed, 28 Jun 2017 01:59:52: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 01:59:52: #1 finished! INFO @ Wed, 28 Jun 2017 01:59:52: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:59:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:59:52: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:59:52: 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 @ Wed, 28 Jun 2017 01:59:52: Process for pairing-model is terminated! cat: SRX2402745.05_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 `SRX2402745.05_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 `SRX2402745.05_*.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 `SRX2402745.05_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 @ Wed, 28 Jun 2017 01:59:55: 18000000 INFO @ Wed, 28 Jun 2017 01:59:56: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:59:56: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:59:56: #1 total tags in treatment: 8991548 INFO @ Wed, 28 Jun 2017 01:59:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:59:56: #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 01:59:57: #1 tags after filtering in treatment: 6048580 INFO @ Wed, 28 Jun 2017 01:59:57: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 01:59:57: #1 finished! INFO @ Wed, 28 Jun 2017 01:59:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:59:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:59:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:59:57: 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 @ Wed, 28 Jun 2017 01:59:57: Process for pairing-model is terminated! cat: SRX2402745.20_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 `SRX2402745.20_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 `SRX2402745.20_*.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 `SRX2402745.20_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。