Job ID = 9160181 sra ファイルのダウンロード中... Completed: 545971K bytes transferred in 43 seconds (103513K 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 9324407 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831028/SRR5572347.sra Written 9324407 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: 00:07:09 9324407 reads; of these: 9324407 (100.00%) were paired; of these: 149857 (1.61%) aligned concordantly 0 times 7783441 (83.47%) aligned concordantly exactly 1 time 1391109 (14.92%) aligned concordantly >1 times ---- 149857 pairs aligned concordantly 0 times; of these: 1986 (1.33%) aligned discordantly 1 time ---- 147871 pairs aligned 0 times concordantly or discordantly; of these: 295742 mates make up the pairs; of these: 279919 (94.65%) aligned 0 times 10024 (3.39%) aligned exactly 1 time 5799 (1.96%) aligned >1 times 98.50% overall alignment rate Time searching: 00:07:09 Overall time: 00:07:09 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] 406180 / 9175549 = 0.0443 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 02:13:44: # Command line: callpeak -t SRX2831028.bam -f BAM -g 12100000 -n SRX2831028.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2831028.10 # format = BAM # ChIP-seq file = ['SRX2831028.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 02:13:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:13:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:13:44: # Command line: callpeak -t SRX2831028.bam -f BAM -g 12100000 -n SRX2831028.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2831028.20 # format = BAM # ChIP-seq file = ['SRX2831028.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 02:13:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:13:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:13:44: # Command line: callpeak -t SRX2831028.bam -f BAM -g 12100000 -n SRX2831028.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2831028.05 # format = BAM # ChIP-seq file = ['SRX2831028.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 02:13:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:13:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:13:50: 1000000 INFO @ Wed, 28 Jun 2017 02:13:51: 1000000 INFO @ Wed, 28 Jun 2017 02:13:51: 1000000 INFO @ Wed, 28 Jun 2017 02:13:56: 2000000 INFO @ Wed, 28 Jun 2017 02:13:57: 2000000 INFO @ Wed, 28 Jun 2017 02:13:57: 2000000 INFO @ Wed, 28 Jun 2017 02:14:02: 3000000 INFO @ Wed, 28 Jun 2017 02:14:04: 3000000 INFO @ Wed, 28 Jun 2017 02:14:04: 3000000 INFO @ Wed, 28 Jun 2017 02:14:07: 4000000 INFO @ Wed, 28 Jun 2017 02:14:11: 4000000 INFO @ Wed, 28 Jun 2017 02:14:11: 4000000 INFO @ Wed, 28 Jun 2017 02:14:13: 5000000 INFO @ Wed, 28 Jun 2017 02:14:17: 5000000 INFO @ Wed, 28 Jun 2017 02:14:17: 5000000 INFO @ Wed, 28 Jun 2017 02:14:19: 6000000 INFO @ Wed, 28 Jun 2017 02:14:24: 6000000 INFO @ Wed, 28 Jun 2017 02:14:24: 6000000 INFO @ Wed, 28 Jun 2017 02:14:25: 7000000 INFO @ Wed, 28 Jun 2017 02:14:31: 7000000 INFO @ Wed, 28 Jun 2017 02:14:31: 7000000 INFO @ Wed, 28 Jun 2017 02:14:31: 8000000 INFO @ Wed, 28 Jun 2017 02:14:37: 9000000 INFO @ Wed, 28 Jun 2017 02:14:37: 8000000 INFO @ Wed, 28 Jun 2017 02:14:37: 8000000 INFO @ Wed, 28 Jun 2017 02:14:43: 10000000 INFO @ Wed, 28 Jun 2017 02:14:44: 9000000 INFO @ Wed, 28 Jun 2017 02:14:44: 9000000 INFO @ Wed, 28 Jun 2017 02:14:48: 11000000 INFO @ Wed, 28 Jun 2017 02:14:50: 10000000 INFO @ Wed, 28 Jun 2017 02:14:50: 10000000 INFO @ Wed, 28 Jun 2017 02:14:54: 12000000 INFO @ Wed, 28 Jun 2017 02:14:57: 11000000 INFO @ Wed, 28 Jun 2017 02:14:57: 11000000 INFO @ Wed, 28 Jun 2017 02:15:01: 13000000 INFO @ Wed, 28 Jun 2017 02:15:03: 12000000 INFO @ Wed, 28 Jun 2017 02:15:03: 12000000 INFO @ Wed, 28 Jun 2017 02:15:06: 14000000 INFO @ Wed, 28 Jun 2017 02:15:10: 13000000 INFO @ Wed, 28 Jun 2017 02:15:10: 13000000 INFO @ Wed, 28 Jun 2017 02:15:12: 15000000 INFO @ Wed, 28 Jun 2017 02:15:16: 14000000 INFO @ Wed, 28 Jun 2017 02:15:16: 14000000 INFO @ Wed, 28 Jun 2017 02:15:18: 16000000 INFO @ Wed, 28 Jun 2017 02:15:22: 15000000 INFO @ Wed, 28 Jun 2017 02:15:22: 15000000 INFO @ Wed, 28 Jun 2017 02:15:24: 17000000 INFO @ Wed, 28 Jun 2017 02:15:27: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:15:27: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:15:27: #1 total tags in treatment: 8768384 INFO @ Wed, 28 Jun 2017 02:15:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:15:27: #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 02:15:27: #1 tags after filtering in treatment: 5596371 INFO @ Wed, 28 Jun 2017 02:15:27: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 02:15:27: #1 finished! INFO @ Wed, 28 Jun 2017 02:15:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:15:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:15:28: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:15:28: 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 02:15:28: Process for pairing-model is terminated! cat: SRX2831028.10_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 `SRX2831028.10_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 `SRX2831028.10_*.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 `SRX2831028.10_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 02:15:28: 16000000 INFO @ Wed, 28 Jun 2017 02:15:28: 16000000 INFO @ Wed, 28 Jun 2017 02:15:34: 17000000 INFO @ Wed, 28 Jun 2017 02:15:34: 17000000 INFO @ Wed, 28 Jun 2017 02:15:38: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:15:38: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:15:38: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:15:38: #1 total tags in treatment: 8768384 INFO @ Wed, 28 Jun 2017 02:15:38: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:15:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:15:38: #1 total tags in treatment: 8768384 INFO @ Wed, 28 Jun 2017 02:15:38: #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 02:15:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:15:38: #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 02:15:38: #1 tags after filtering in treatment: 5596371 INFO @ Wed, 28 Jun 2017 02:15:38: #1 tags after filtering in treatment: 5596371 INFO @ Wed, 28 Jun 2017 02:15:38: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 02:15:38: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 02:15:38: #1 finished! INFO @ Wed, 28 Jun 2017 02:15:38: #1 finished! INFO @ Wed, 28 Jun 2017 02:15:38: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:15:38: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:15:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:15:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:15:38: #2 number of paired peaks: 0 INFO @ Wed, 28 Jun 2017 02:15:38: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:15:38: 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 02:15:38: 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 02:15:38: Process for pairing-model is terminated! WARNING @ Wed, 28 Jun 2017 02:15:38: Process for pairing-model is terminated! cat: SRX2831028.20_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: SRX2831028.05_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 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 `SRX2831028.20_model.r'rm: cannot remove `SRX2831028.05_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 `SRX2831028.20_*.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 `SRX2831028.05_*.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 `SRX2831028.20_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 `SRX2831028.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。