Job ID = 9161974 sra ファイルのダウンロード中... Completed: 672986K bytes transferred in 8 seconds (624592K 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 11667423 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423706/SRR2930995.sra Written 11667423 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: 00:09:21 11667423 reads; of these: 11667423 (100.00%) were paired; of these: 414139 (3.55%) aligned concordantly 0 times 10034362 (86.00%) aligned concordantly exactly 1 time 1218922 (10.45%) aligned concordantly >1 times ---- 414139 pairs aligned concordantly 0 times; of these: 12551 (3.03%) aligned discordantly 1 time ---- 401588 pairs aligned 0 times concordantly or discordantly; of these: 803176 mates make up the pairs; of these: 631478 (78.62%) aligned 0 times 143621 (17.88%) aligned exactly 1 time 28077 (3.50%) aligned >1 times 97.29% overall alignment rate Time searching: 00:09:21 Overall time: 00:09:21 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] 4639223 / 11255987 = 0.4122 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 05:23:14: # Command line: callpeak -t SRX1423706.bam -f BAM -g 12100000 -n SRX1423706.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423706.10 # format = BAM # ChIP-seq file = ['SRX1423706.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 05:23:14: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:14: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:14: # Command line: callpeak -t SRX1423706.bam -f BAM -g 12100000 -n SRX1423706.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423706.05 # format = BAM # ChIP-seq file = ['SRX1423706.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 05:23:14: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:14: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:14: # Command line: callpeak -t SRX1423706.bam -f BAM -g 12100000 -n SRX1423706.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423706.20 # format = BAM # ChIP-seq file = ['SRX1423706.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 05:23:14: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:14: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:20: 1000000 INFO @ Wed, 28 Jun 2017 05:23:20: 1000000 INFO @ Wed, 28 Jun 2017 05:23:20: 1000000 INFO @ Wed, 28 Jun 2017 05:23:27: 2000000 INFO @ Wed, 28 Jun 2017 05:23:27: 2000000 INFO @ Wed, 28 Jun 2017 05:23:27: 2000000 INFO @ Wed, 28 Jun 2017 05:23:33: 3000000 INFO @ Wed, 28 Jun 2017 05:23:34: 3000000 INFO @ Wed, 28 Jun 2017 05:23:34: 3000000 INFO @ Wed, 28 Jun 2017 05:23:40: 4000000 INFO @ Wed, 28 Jun 2017 05:23:41: 4000000 INFO @ Wed, 28 Jun 2017 05:23:41: 4000000 INFO @ Wed, 28 Jun 2017 05:23:48: 5000000 INFO @ Wed, 28 Jun 2017 05:23:49: 5000000 INFO @ Wed, 28 Jun 2017 05:23:49: 5000000 INFO @ Wed, 28 Jun 2017 05:23:56: 6000000 INFO @ Wed, 28 Jun 2017 05:23:57: 6000000 INFO @ Wed, 28 Jun 2017 05:23:57: 6000000 INFO @ Wed, 28 Jun 2017 05:24:04: 7000000 INFO @ Wed, 28 Jun 2017 05:24:05: 7000000 INFO @ Wed, 28 Jun 2017 05:24:05: 7000000 INFO @ Wed, 28 Jun 2017 05:24:12: 8000000 INFO @ Wed, 28 Jun 2017 05:24:13: 8000000 INFO @ Wed, 28 Jun 2017 05:24:13: 8000000 INFO @ Wed, 28 Jun 2017 05:24:21: 9000000 INFO @ Wed, 28 Jun 2017 05:24:21: 9000000 INFO @ Wed, 28 Jun 2017 05:24:21: 9000000 INFO @ Wed, 28 Jun 2017 05:24:29: 10000000 INFO @ Wed, 28 Jun 2017 05:24:30: 10000000 INFO @ Wed, 28 Jun 2017 05:24:30: 10000000 INFO @ Wed, 28 Jun 2017 05:24:37: 11000000 INFO @ Wed, 28 Jun 2017 05:24:38: 11000000 INFO @ Wed, 28 Jun 2017 05:24:38: 11000000 INFO @ Wed, 28 Jun 2017 05:24:45: 12000000 INFO @ Wed, 28 Jun 2017 05:24:46: 12000000 INFO @ Wed, 28 Jun 2017 05:24:46: 12000000 INFO @ Wed, 28 Jun 2017 05:24:53: 13000000 INFO @ Wed, 28 Jun 2017 05:24:54: 13000000 INFO @ Wed, 28 Jun 2017 05:24:54: 13000000 INFO @ Wed, 28 Jun 2017 05:24:56: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:56: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:56: #1 total tags in treatment: 6614405 INFO @ Wed, 28 Jun 2017 05:24:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:56: #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 05:24:56: #1 tags after filtering in treatment: 5427055 INFO @ Wed, 28 Jun 2017 05:24:56: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:24:56: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:56: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:57: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:57: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:57: #1 total tags in treatment: 6614405 INFO @ Wed, 28 Jun 2017 05:24:57: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:57: #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 05:24:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:57: 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 05:24:57: Process for pairing-model is terminated! cat: SRX1423706.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 05:24:57: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:57: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:57: #1 total tags in treatment: 6614405 INFO @ Wed, 28 Jun 2017 05:24:57: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423706.10_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 `SRX1423706.10_*.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 `SRX1423706.10_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 05:24:57: #1 tags after filtering in treatment: 5427055 INFO @ Wed, 28 Jun 2017 05:24:57: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:24:57: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:57: #1 tags after filtering in treatment: 5427055 INFO @ Wed, 28 Jun 2017 05:24:57: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:24:57: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:57: 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 05:24:57: Process for pairing-model is terminated! cat: SRX1423706.05_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 `SRX1423706.05_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 `SRX1423706.05_*.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 `SRX1423706.05_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 05:24:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:57: 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 05:24:57: Process for pairing-model is terminated! cat: SRX1423706.20_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 `SRX1423706.20_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 `SRX1423706.20_*.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 `SRX1423706.20_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。