Job ID = 9162531 sra ファイルのダウンロード中... Completed: 1836799K bytes transferred in 18 seconds (798565K 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 14807490 spots for /home/okishinya/chipatlas/results/sacCer3/SRX363276/SRR1009165.sra Written 14807490 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: 00:16:44 14807490 reads; of these: 14807490 (100.00%) were paired; of these: 3546808 (23.95%) aligned concordantly 0 times 9262330 (62.55%) aligned concordantly exactly 1 time 1998352 (13.50%) aligned concordantly >1 times ---- 3546808 pairs aligned concordantly 0 times; of these: 317823 (8.96%) aligned discordantly 1 time ---- 3228985 pairs aligned 0 times concordantly or discordantly; of these: 6457970 mates make up the pairs; of these: 5994049 (92.82%) aligned 0 times 224549 (3.48%) aligned exactly 1 time 239372 (3.71%) aligned >1 times 79.76% overall alignment rate Time searching: 00:16:44 Overall time: 00:16:44 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 12 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] 696707 / 11550851 = 0.0603 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 08:33:54: # Command line: callpeak -t SRX363276.bam -f BAM -g 12100000 -n SRX363276.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX363276.20 # format = BAM # ChIP-seq file = ['SRX363276.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 08:33:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:33:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:33:54: # Command line: callpeak -t SRX363276.bam -f BAM -g 12100000 -n SRX363276.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX363276.05 # format = BAM # ChIP-seq file = ['SRX363276.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 08:33:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:33:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:33:54: # Command line: callpeak -t SRX363276.bam -f BAM -g 12100000 -n SRX363276.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX363276.10 # format = BAM # ChIP-seq file = ['SRX363276.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 08:33:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:33:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:34:03: 1000000 INFO @ Wed, 28 Jun 2017 08:34:04: 1000000 INFO @ Wed, 28 Jun 2017 08:34:04: 1000000 INFO @ Wed, 28 Jun 2017 08:34:11: 2000000 INFO @ Wed, 28 Jun 2017 08:34:14: 2000000 INFO @ Wed, 28 Jun 2017 08:34:14: 2000000 INFO @ Wed, 28 Jun 2017 08:34:20: 3000000 INFO @ Wed, 28 Jun 2017 08:34:25: 3000000 INFO @ Wed, 28 Jun 2017 08:34:25: 3000000 INFO @ Wed, 28 Jun 2017 08:34:31: 4000000 INFO @ Wed, 28 Jun 2017 08:34:36: 4000000 INFO @ Wed, 28 Jun 2017 08:34:36: 4000000 INFO @ Wed, 28 Jun 2017 08:34:42: 5000000 INFO @ Wed, 28 Jun 2017 08:34:47: 5000000 INFO @ Wed, 28 Jun 2017 08:34:47: 5000000 INFO @ Wed, 28 Jun 2017 08:34:52: 6000000 INFO @ Wed, 28 Jun 2017 08:34:55: 6000000 INFO @ Wed, 28 Jun 2017 08:34:55: 6000000 INFO @ Wed, 28 Jun 2017 08:35:01: 7000000 INFO @ Wed, 28 Jun 2017 08:35:05: 7000000 INFO @ Wed, 28 Jun 2017 08:35:05: 7000000 INFO @ Wed, 28 Jun 2017 08:35:11: 8000000 INFO @ Wed, 28 Jun 2017 08:35:15: 8000000 INFO @ Wed, 28 Jun 2017 08:35:15: 8000000 INFO @ Wed, 28 Jun 2017 08:35:21: 9000000 INFO @ Wed, 28 Jun 2017 08:35:25: 9000000 INFO @ Wed, 28 Jun 2017 08:35:25: 9000000 INFO @ Wed, 28 Jun 2017 08:35:31: 10000000 INFO @ Wed, 28 Jun 2017 08:35:35: 10000000 INFO @ Wed, 28 Jun 2017 08:35:35: 10000000 INFO @ Wed, 28 Jun 2017 08:35:41: 11000000 INFO @ Wed, 28 Jun 2017 08:35:45: 11000000 INFO @ Wed, 28 Jun 2017 08:35:45: 11000000 INFO @ Wed, 28 Jun 2017 08:35:51: 12000000 INFO @ Wed, 28 Jun 2017 08:35:56: 12000000 INFO @ Wed, 28 Jun 2017 08:35:56: 12000000 INFO @ Wed, 28 Jun 2017 08:36:01: 13000000 INFO @ Wed, 28 Jun 2017 08:36:06: 13000000 INFO @ Wed, 28 Jun 2017 08:36:06: 13000000 INFO @ Wed, 28 Jun 2017 08:36:10: 14000000 INFO @ Wed, 28 Jun 2017 08:36:17: 14000000 INFO @ Wed, 28 Jun 2017 08:36:17: 14000000 INFO @ Wed, 28 Jun 2017 08:36:21: 15000000 INFO @ Wed, 28 Jun 2017 08:36:28: 15000000 INFO @ Wed, 28 Jun 2017 08:36:28: 15000000 INFO @ Wed, 28 Jun 2017 08:36:31: 16000000 INFO @ Wed, 28 Jun 2017 08:36:39: 16000000 INFO @ Wed, 28 Jun 2017 08:36:39: 16000000 INFO @ Wed, 28 Jun 2017 08:36:41: 17000000 INFO @ Wed, 28 Jun 2017 08:36:50: 17000000 INFO @ Wed, 28 Jun 2017 08:36:50: 17000000 INFO @ Wed, 28 Jun 2017 08:36:51: 18000000 INFO @ Wed, 28 Jun 2017 08:37:01: 18000000 INFO @ Wed, 28 Jun 2017 08:37:01: 18000000 INFO @ Wed, 28 Jun 2017 08:37:01: 19000000 INFO @ Wed, 28 Jun 2017 08:37:11: 20000000 INFO @ Wed, 28 Jun 2017 08:37:12: 19000000 INFO @ Wed, 28 Jun 2017 08:37:12: 19000000 INFO @ Wed, 28 Jun 2017 08:37:22: 21000000 INFO @ Wed, 28 Jun 2017 08:37:23: 20000000 INFO @ Wed, 28 Jun 2017 08:37:23: 20000000 INFO @ Wed, 28 Jun 2017 08:37:32: 22000000 INFO @ Wed, 28 Jun 2017 08:37:34: 21000000 INFO @ Wed, 28 Jun 2017 08:37:34: 21000000 INFO @ Wed, 28 Jun 2017 08:37:34: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 08:37:34: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 08:37:34: #1 total tags in treatment: 10567339 INFO @ Wed, 28 Jun 2017 08:37:34: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:37:34: #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 08:37:34: #1 tags after filtering in treatment: 7566579 INFO @ Wed, 28 Jun 2017 08:37:34: #1 Redundant rate of treatment: 0.28 INFO @ Wed, 28 Jun 2017 08:37:34: #1 finished! INFO @ Wed, 28 Jun 2017 08:37:34: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:37:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:37:35: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:37:35: 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 08:37:35: Process for pairing-model is terminated! cat: SRX363276.05_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 `SRX363276.05_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 `SRX363276.05_*.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 `SRX363276.05_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... INFO @ Wed, 28 Jun 2017 08:37:43: 22000000 INFO @ Wed, 28 Jun 2017 08:37:43: 22000000 INFO @ Wed, 28 Jun 2017 08:37:45: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 08:37:45: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 08:37:45: #1 total tags in treatment: 10567339 INFO @ Wed, 28 Jun 2017 08:37:45: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:37:45: #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 08:37:45: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 08:37:45: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 08:37:45: #1 total tags in treatment: 10567339 INFO @ Wed, 28 Jun 2017 08:37:45: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:37:45: #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 08:37:45: #1 tags after filtering in treatment: 7566579 INFO @ Wed, 28 Jun 2017 08:37:45: #1 Redundant rate of treatment: 0.28 INFO @ Wed, 28 Jun 2017 08:37:45: #1 finished! INFO @ Wed, 28 Jun 2017 08:37:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:37:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:37:45: #1 tags after filtering in treatment: 7566579 INFO @ Wed, 28 Jun 2017 08:37:45: #1 Redundant rate of treatment: 0.28 INFO @ Wed, 28 Jun 2017 08:37:45: #1 finished! INFO @ Wed, 28 Jun 2017 08:37:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:37:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:37:45: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:37:45: 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 08:37:45: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 08:37:45: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:37:45: 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 08:37:45: Process for pairing-model is terminated! cat: SRX363276.10_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) cat: SRX363276.20_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 `SRX363276.10_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 `SRX363276.10_*.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 `SRX363276.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX363276.20_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 `SRX363276.20_*.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 `SRX363276.20_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 BigWig に変換しました。