Job ID = 9161971 sra ファイルのダウンロード中... Completed: 539808K bytes transferred in 7 seconds (572033K 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 9372348 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423703/SRR2930992.sra Written 9372348 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: 00:07:03 9372348 reads; of these: 9372348 (100.00%) were paired; of these: 809491 (8.64%) aligned concordantly 0 times 7525405 (80.29%) aligned concordantly exactly 1 time 1037452 (11.07%) aligned concordantly >1 times ---- 809491 pairs aligned concordantly 0 times; of these: 9621 (1.19%) aligned discordantly 1 time ---- 799870 pairs aligned 0 times concordantly or discordantly; of these: 1599740 mates make up the pairs; of these: 1497644 (93.62%) aligned 0 times 82767 (5.17%) aligned exactly 1 time 19329 (1.21%) aligned >1 times 92.01% overall alignment rate Time searching: 00:07:03 Overall time: 00:07:03 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] 2007904 / 8564208 = 0.2345 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 05:19:00: # Command line: callpeak -t SRX1423703.bam -f BAM -g 12100000 -n SRX1423703.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423703.20 # format = BAM # ChIP-seq file = ['SRX1423703.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 05:19:00: # Command line: callpeak -t SRX1423703.bam -f BAM -g 12100000 -n SRX1423703.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423703.05 # format = BAM # ChIP-seq file = ['SRX1423703.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 05:19:00: # Command line: callpeak -t SRX1423703.bam -f BAM -g 12100000 -n SRX1423703.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423703.10 # format = BAM # ChIP-seq file = ['SRX1423703.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 05:19:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:19:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:19:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:19:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:19:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:19:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:19:05: 1000000 INFO @ Wed, 28 Jun 2017 05:19:05: 1000000 INFO @ Wed, 28 Jun 2017 05:19:05: 1000000 INFO @ Wed, 28 Jun 2017 05:19:11: 2000000 INFO @ Wed, 28 Jun 2017 05:19:11: 2000000 INFO @ Wed, 28 Jun 2017 05:19:11: 2000000 INFO @ Wed, 28 Jun 2017 05:19:17: 3000000 INFO @ Wed, 28 Jun 2017 05:19:17: 3000000 INFO @ Wed, 28 Jun 2017 05:19:17: 3000000 INFO @ Wed, 28 Jun 2017 05:19:22: 4000000 INFO @ Wed, 28 Jun 2017 05:19:22: 4000000 INFO @ Wed, 28 Jun 2017 05:19:23: 4000000 INFO @ Wed, 28 Jun 2017 05:19:28: 5000000 INFO @ Wed, 28 Jun 2017 05:19:28: 5000000 INFO @ Wed, 28 Jun 2017 05:19:28: 5000000 INFO @ Wed, 28 Jun 2017 05:19:33: 6000000 INFO @ Wed, 28 Jun 2017 05:19:33: 6000000 INFO @ Wed, 28 Jun 2017 05:19:34: 6000000 INFO @ Wed, 28 Jun 2017 05:19:39: 7000000 INFO @ Wed, 28 Jun 2017 05:19:39: 7000000 INFO @ Wed, 28 Jun 2017 05:19:40: 7000000 INFO @ Wed, 28 Jun 2017 05:19:45: 8000000 INFO @ Wed, 28 Jun 2017 05:19:45: 8000000 INFO @ Wed, 28 Jun 2017 05:19:45: 8000000 INFO @ Wed, 28 Jun 2017 05:19:50: 9000000 INFO @ Wed, 28 Jun 2017 05:19:50: 9000000 INFO @ Wed, 28 Jun 2017 05:19:51: 9000000 INFO @ Wed, 28 Jun 2017 05:19:56: 10000000 INFO @ Wed, 28 Jun 2017 05:19:56: 10000000 INFO @ Wed, 28 Jun 2017 05:19:57: 10000000 INFO @ Wed, 28 Jun 2017 05:20:01: 11000000 INFO @ Wed, 28 Jun 2017 05:20:01: 11000000 INFO @ Wed, 28 Jun 2017 05:20:02: 11000000 INFO @ Wed, 28 Jun 2017 05:20:07: 12000000 INFO @ Wed, 28 Jun 2017 05:20:07: 12000000 INFO @ Wed, 28 Jun 2017 05:20:08: 12000000 INFO @ Wed, 28 Jun 2017 05:20:12: 13000000 INFO @ Wed, 28 Jun 2017 05:20:13: 13000000 INFO @ Wed, 28 Jun 2017 05:20:13: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:20:13: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:20:13: #1 total tags in treatment: 6555143 INFO @ Wed, 28 Jun 2017 05:20:13: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:20:13: #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 05:20:14: #1 tags after filtering in treatment: 5356824 INFO @ Wed, 28 Jun 2017 05:20:14: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:20:14: #1 finished! INFO @ Wed, 28 Jun 2017 05:20:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:20:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:20:14: 13000000 INFO @ Wed, 28 Jun 2017 05:20:14: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:20:14: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:20:14: #1 total tags in treatment: 6555143 INFO @ Wed, 28 Jun 2017 05:20:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:20:14: #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 05:20:14: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:20:14: 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 05:20:14: Process for pairing-model is terminated! cat: SRX1423703.10_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 `SRX1423703.10_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 `SRX1423703.10_*.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 `SRX1423703.10_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 05:20:14: #1 tags after filtering in treatment: 5356824 INFO @ Wed, 28 Jun 2017 05:20:14: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:20:14: #1 finished! INFO @ Wed, 28 Jun 2017 05:20:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:20:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:20:14: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:20:14: 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 05:20:14: Process for pairing-model is terminated! cat: SRX1423703.05_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 `SRX1423703.05_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 `SRX1423703.05_*.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 `SRX1423703.05_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 05:20:15: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:20:15: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:20:15: #1 total tags in treatment: 6555143 INFO @ Wed, 28 Jun 2017 05:20:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:20:15: #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 05:20:15: #1 tags after filtering in treatment: 5356824 INFO @ Wed, 28 Jun 2017 05:20:15: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:20:15: #1 finished! INFO @ Wed, 28 Jun 2017 05:20:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:20:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:20:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:20:16: 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 05:20:16: Process for pairing-model is terminated! cat: SRX1423703.20_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 `SRX1423703.20_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 `SRX1423703.20_*.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 `SRX1423703.20_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。