Job ID = 10536476 sra ファイルのダウンロード中... Completed: 1353238K bytes transferred in 55 seconds (200083K bits/sec), in 1 file. 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 34236886 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671174/SRR6696926.sra Written 34236886 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:19:07 34236886 reads; of these: 34236886 (100.00%) were paired; of these: 12614698 (36.85%) aligned concordantly 0 times 18958412 (55.37%) aligned concordantly exactly 1 time 2663776 (7.78%) aligned concordantly >1 times ---- 12614698 pairs aligned concordantly 0 times; of these: 64171 (0.51%) aligned discordantly 1 time ---- 12550527 pairs aligned 0 times concordantly or discordantly; of these: 25101054 mates make up the pairs; of these: 24724631 (98.50%) aligned 0 times 306652 (1.22%) aligned exactly 1 time 69771 (0.28%) aligned >1 times 63.89% overall alignment rate Time searching: 00:19:07 Overall time: 00:19:07 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 20 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] 17467913 / 21631310 = 0.8075 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 @ Thu, 05 Apr 2018 09:59:37: # Command line: callpeak -t SRX3671174.bam -f BAM -g 12100000 -n SRX3671174.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671174.05 # format = BAM # ChIP-seq file = ['SRX3671174.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 @ Thu, 05 Apr 2018 09:59:37: # Command line: callpeak -t SRX3671174.bam -f BAM -g 12100000 -n SRX3671174.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671174.20 # format = BAM # ChIP-seq file = ['SRX3671174.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 @ Thu, 05 Apr 2018 09:59:37: # Command line: callpeak -t SRX3671174.bam -f BAM -g 12100000 -n SRX3671174.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671174.10 # format = BAM # ChIP-seq file = ['SRX3671174.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 @ Thu, 05 Apr 2018 09:59:37: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:59:37: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:59:37: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:59:37: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:59:37: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:59:37: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:59:44: 1000000 INFO @ Thu, 05 Apr 2018 09:59:44: 1000000 INFO @ Thu, 05 Apr 2018 09:59:45: 1000000 INFO @ Thu, 05 Apr 2018 09:59:52: 2000000 INFO @ Thu, 05 Apr 2018 09:59:52: 2000000 INFO @ Thu, 05 Apr 2018 09:59:52: 2000000 INFO @ Thu, 05 Apr 2018 09:59:59: 3000000 INFO @ Thu, 05 Apr 2018 09:59:59: 3000000 INFO @ Thu, 05 Apr 2018 09:59:59: 3000000 INFO @ Thu, 05 Apr 2018 10:00:06: 4000000 INFO @ Thu, 05 Apr 2018 10:00:06: 4000000 INFO @ Thu, 05 Apr 2018 10:00:06: 4000000 INFO @ Thu, 05 Apr 2018 10:00:13: 5000000 INFO @ Thu, 05 Apr 2018 10:00:13: 5000000 INFO @ Thu, 05 Apr 2018 10:00:13: 5000000 INFO @ Thu, 05 Apr 2018 10:00:20: 6000000 INFO @ Thu, 05 Apr 2018 10:00:20: 6000000 INFO @ Thu, 05 Apr 2018 10:00:20: 6000000 INFO @ Thu, 05 Apr 2018 10:00:27: 7000000 INFO @ Thu, 05 Apr 2018 10:00:27: 7000000 INFO @ Thu, 05 Apr 2018 10:00:27: 7000000 INFO @ Thu, 05 Apr 2018 10:00:34: 8000000 INFO @ Thu, 05 Apr 2018 10:00:34: 8000000 INFO @ Thu, 05 Apr 2018 10:00:34: 8000000 INFO @ Thu, 05 Apr 2018 10:00:39: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:00:39: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:00:39: #1 total tags in treatment: 4160121 INFO @ Thu, 05 Apr 2018 10:00:39: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:00:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:00:39: #1 tags after filtering in treatment: 3505289 INFO @ Thu, 05 Apr 2018 10:00:39: #1 Redundant rate of treatment: 0.16 INFO @ Thu, 05 Apr 2018 10:00:39: #1 finished! INFO @ Thu, 05 Apr 2018 10:00:39: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:00:39: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:00:40: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:00:40: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:00:40: #1 total tags in treatment: 4160121 INFO @ Thu, 05 Apr 2018 10:00:40: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:00:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:00:40: #1 tags after filtering in treatment: 3505289 INFO @ Thu, 05 Apr 2018 10:00:40: #1 Redundant rate of treatment: 0.16 INFO @ Thu, 05 Apr 2018 10:00:40: #1 finished! INFO @ Thu, 05 Apr 2018 10:00:40: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:00:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:00:40: #2 number of paired peaks: 29 WARNING @ Thu, 05 Apr 2018 10:00:40: Too few paired peaks (29) 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 @ Thu, 05 Apr 2018 10:00:40: Process for pairing-model is terminated! cat: SRX3671174.10_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 `SRX3671174.10_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 `SRX3671174.10_*.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 `SRX3671174.10_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 @ Thu, 05 Apr 2018 10:00:40: #2 number of paired peaks: 29 WARNING @ Thu, 05 Apr 2018 10:00:40: Too few paired peaks (29) 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 @ Thu, 05 Apr 2018 10:00:40: Process for pairing-model is terminated! cat: SRX3671174.20_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 `SRX3671174.20_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 `SRX3671174.20_*.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 `SRX3671174.20_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 @ Thu, 05 Apr 2018 10:00:40: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:00:40: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:00:40: #1 total tags in treatment: 4160121 INFO @ Thu, 05 Apr 2018 10:00:40: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:00:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:00:40: #1 tags after filtering in treatment: 3505289 INFO @ Thu, 05 Apr 2018 10:00:40: #1 Redundant rate of treatment: 0.16 INFO @ Thu, 05 Apr 2018 10:00:40: #1 finished! INFO @ Thu, 05 Apr 2018 10:00:40: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:00:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:00:40: #2 number of paired peaks: 29 WARNING @ Thu, 05 Apr 2018 10:00:40: Too few paired peaks (29) 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 @ Thu, 05 Apr 2018 10:00:40: Process for pairing-model is terminated! cat: SRX3671174.05_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 `SRX3671174.05_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 `SRX3671174.05_*.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 `SRX3671174.05_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... BigWig に変換しました。