Job ID = 9162446 sra ファイルのダウンロード中... Completed: 653671K bytes transferred in 6 seconds (814046K 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 11211334 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2518699/SRR5204809.sra Written 11211334 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: 00:08:42 11211334 reads; of these: 11211334 (100.00%) were paired; of these: 665998 (5.94%) aligned concordantly 0 times 9064059 (80.85%) aligned concordantly exactly 1 time 1481277 (13.21%) aligned concordantly >1 times ---- 665998 pairs aligned concordantly 0 times; of these: 979 (0.15%) aligned discordantly 1 time ---- 665019 pairs aligned 0 times concordantly or discordantly; of these: 1330038 mates make up the pairs; of these: 1314334 (98.82%) aligned 0 times 9329 (0.70%) aligned exactly 1 time 6375 (0.48%) aligned >1 times 94.14% overall alignment rate Time searching: 00:08:42 Overall time: 00:08:42 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] 353274 / 10545568 = 0.0335 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 08:05:18: # Command line: callpeak -t SRX2518699.bam -f BAM -g 12100000 -n SRX2518699.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2518699.20 # format = BAM # ChIP-seq file = ['SRX2518699.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 08:05:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:05:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:05:18: # Command line: callpeak -t SRX2518699.bam -f BAM -g 12100000 -n SRX2518699.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2518699.10 # format = BAM # ChIP-seq file = ['SRX2518699.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 08:05:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:05:18: # Command line: callpeak -t SRX2518699.bam -f BAM -g 12100000 -n SRX2518699.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2518699.05 # format = BAM # ChIP-seq file = ['SRX2518699.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 08:05:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:05:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:05:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:05:23: 1000000 INFO @ Wed, 28 Jun 2017 08:05:23: 1000000 INFO @ Wed, 28 Jun 2017 08:05:23: 1000000 INFO @ Wed, 28 Jun 2017 08:05:29: 2000000 INFO @ Wed, 28 Jun 2017 08:05:29: 2000000 INFO @ Wed, 28 Jun 2017 08:05:29: 2000000 INFO @ Wed, 28 Jun 2017 08:05:35: 3000000 INFO @ Wed, 28 Jun 2017 08:05:35: 3000000 INFO @ Wed, 28 Jun 2017 08:05:35: 3000000 INFO @ Wed, 28 Jun 2017 08:05:40: 4000000 INFO @ Wed, 28 Jun 2017 08:05:41: 4000000 INFO @ Wed, 28 Jun 2017 08:05:41: 4000000 INFO @ Wed, 28 Jun 2017 08:05:46: 5000000 INFO @ Wed, 28 Jun 2017 08:05:47: 5000000 INFO @ Wed, 28 Jun 2017 08:05:47: 5000000 INFO @ Wed, 28 Jun 2017 08:05:51: 6000000 INFO @ Wed, 28 Jun 2017 08:05:53: 6000000 INFO @ Wed, 28 Jun 2017 08:05:53: 6000000 INFO @ Wed, 28 Jun 2017 08:05:57: 7000000 INFO @ Wed, 28 Jun 2017 08:05:58: 7000000 INFO @ Wed, 28 Jun 2017 08:05:58: 7000000 INFO @ Wed, 28 Jun 2017 08:06:02: 8000000 INFO @ Wed, 28 Jun 2017 08:06:05: 8000000 INFO @ Wed, 28 Jun 2017 08:06:05: 8000000 INFO @ Wed, 28 Jun 2017 08:06:08: 9000000 INFO @ Wed, 28 Jun 2017 08:06:12: 9000000 INFO @ Wed, 28 Jun 2017 08:06:12: 9000000 INFO @ Wed, 28 Jun 2017 08:06:14: 10000000 INFO @ Wed, 28 Jun 2017 08:06:19: 10000000 INFO @ Wed, 28 Jun 2017 08:06:19: 10000000 INFO @ Wed, 28 Jun 2017 08:06:19: 11000000 INFO @ Wed, 28 Jun 2017 08:06:25: 12000000 INFO @ Wed, 28 Jun 2017 08:06:25: 11000000 INFO @ Wed, 28 Jun 2017 08:06:25: 11000000 INFO @ Wed, 28 Jun 2017 08:06:30: 13000000 INFO @ Wed, 28 Jun 2017 08:06:32: 12000000 INFO @ Wed, 28 Jun 2017 08:06:32: 12000000 INFO @ Wed, 28 Jun 2017 08:06:36: 14000000 INFO @ Wed, 28 Jun 2017 08:06:38: 13000000 INFO @ Wed, 28 Jun 2017 08:06:38: 13000000 INFO @ Wed, 28 Jun 2017 08:06:42: 15000000 INFO @ Wed, 28 Jun 2017 08:06:45: 14000000 INFO @ Wed, 28 Jun 2017 08:06:45: 14000000 INFO @ Wed, 28 Jun 2017 08:06:47: 16000000 INFO @ Wed, 28 Jun 2017 08:06:52: 15000000 INFO @ Wed, 28 Jun 2017 08:06:52: 15000000 INFO @ Wed, 28 Jun 2017 08:06:53: 17000000 INFO @ Wed, 28 Jun 2017 08:06:58: 16000000 INFO @ Wed, 28 Jun 2017 08:06:58: 16000000 INFO @ Wed, 28 Jun 2017 08:06:58: 18000000 INFO @ Wed, 28 Jun 2017 08:07:04: 19000000 INFO @ Wed, 28 Jun 2017 08:07:05: 17000000 INFO @ Wed, 28 Jun 2017 08:07:05: 17000000 INFO @ Wed, 28 Jun 2017 08:07:10: 20000000 INFO @ Wed, 28 Jun 2017 08:07:12: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:07:12: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:07:12: #1 total tags in treatment: 10192070 INFO @ Wed, 28 Jun 2017 08:07:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:07:12: #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 08:07:12: 18000000 INFO @ Wed, 28 Jun 2017 08:07:12: 18000000 INFO @ Wed, 28 Jun 2017 08:07:12: #1 tags after filtering in treatment: 7662440 INFO @ Wed, 28 Jun 2017 08:07:12: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 28 Jun 2017 08:07:12: #1 finished! INFO @ Wed, 28 Jun 2017 08:07:12: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:07:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:07:13: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:07:13: 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 08:07:13: Process for pairing-model is terminated! cat: SRX2518699.20_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 `SRX2518699.20_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 `SRX2518699.20_*.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 `SRX2518699.20_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 INFO @ Wed, 28 Jun 2017 08:07:19: 19000000 INFO @ Wed, 28 Jun 2017 08:07:19: 19000000 INFO @ Wed, 28 Jun 2017 08:07:26: 20000000 INFO @ Wed, 28 Jun 2017 08:07:26: 20000000 INFO @ Wed, 28 Jun 2017 08:07:28: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:07:28: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:07:28: #1 total tags in treatment: 10192070 INFO @ Wed, 28 Jun 2017 08:07:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:07:28: #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 08:07:28: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:07:28: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:07:28: #1 total tags in treatment: 10192070 INFO @ Wed, 28 Jun 2017 08:07:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:07:28: #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 08:07:28: #1 tags after filtering in treatment: 7662440 INFO @ Wed, 28 Jun 2017 08:07:28: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 28 Jun 2017 08:07:28: #1 finished! INFO @ Wed, 28 Jun 2017 08:07:28: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:07:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:07:28: #1 tags after filtering in treatment: 7662440 INFO @ Wed, 28 Jun 2017 08:07:28: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 28 Jun 2017 08:07:28: #1 finished! INFO @ Wed, 28 Jun 2017 08:07:28: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:07:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:07:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:07:29: 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 08:07:29: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 08:07:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:07:29: 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 08:07:29: Process for pairing-model is terminated! cat: SRX2518699.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2518699.10_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 `SRX2518699.05_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 `SRX2518699.05_*.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 `SRX2518699.05_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 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2518699.10_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 `SRX2518699.10_*.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 `SRX2518699.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。