Job ID = 10536448 sra ファイルのダウンロード中... Completed: 1130096K bytes transferred in 37 seconds (247712K 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 26609994 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671166/SRR6696918.sra Written 26609994 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: 00:14:17 26609994 reads; of these: 26609994 (100.00%) were paired; of these: 9331038 (35.07%) aligned concordantly 0 times 14419786 (54.19%) aligned concordantly exactly 1 time 2859170 (10.74%) aligned concordantly >1 times ---- 9331038 pairs aligned concordantly 0 times; of these: 28813 (0.31%) aligned discordantly 1 time ---- 9302225 pairs aligned 0 times concordantly or discordantly; of these: 18604450 mates make up the pairs; of these: 18168920 (97.66%) aligned 0 times 347683 (1.87%) aligned exactly 1 time 87847 (0.47%) aligned >1 times 65.86% overall alignment rate Time searching: 00:14:17 Overall time: 00:14:17 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 16 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] 8479719 / 17288151 = 0.4905 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 09:52:28: # Command line: callpeak -t SRX3671166.bam -f BAM -g 12100000 -n SRX3671166.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671166.10 # format = BAM # ChIP-seq file = ['SRX3671166.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 09:52:28: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:52:28: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:52:28: # Command line: callpeak -t SRX3671166.bam -f BAM -g 12100000 -n SRX3671166.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671166.05 # format = BAM # ChIP-seq file = ['SRX3671166.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 09:52:28: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:52:28: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:52:28: # Command line: callpeak -t SRX3671166.bam -f BAM -g 12100000 -n SRX3671166.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671166.20 # format = BAM # ChIP-seq file = ['SRX3671166.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 09:52:28: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:52:28: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:52:33: 1000000 INFO @ Thu, 05 Apr 2018 09:52:33: 1000000 INFO @ Thu, 05 Apr 2018 09:52:33: 1000000 INFO @ Thu, 05 Apr 2018 09:52:38: 2000000 INFO @ Thu, 05 Apr 2018 09:52:39: 2000000 INFO @ Thu, 05 Apr 2018 09:52:39: 2000000 INFO @ Thu, 05 Apr 2018 09:52:44: 3000000 INFO @ Thu, 05 Apr 2018 09:52:44: 3000000 INFO @ Thu, 05 Apr 2018 09:52:44: 3000000 INFO @ Thu, 05 Apr 2018 09:52:49: 4000000 INFO @ Thu, 05 Apr 2018 09:52:50: 4000000 INFO @ Thu, 05 Apr 2018 09:52:50: 4000000 INFO @ Thu, 05 Apr 2018 09:52:54: 5000000 INFO @ Thu, 05 Apr 2018 09:52:55: 5000000 INFO @ Thu, 05 Apr 2018 09:52:55: 5000000 INFO @ Thu, 05 Apr 2018 09:52:59: 6000000 INFO @ Thu, 05 Apr 2018 09:53:00: 6000000 INFO @ Thu, 05 Apr 2018 09:53:00: 6000000 INFO @ Thu, 05 Apr 2018 09:53:04: 7000000 INFO @ Thu, 05 Apr 2018 09:53:06: 7000000 INFO @ Thu, 05 Apr 2018 09:53:06: 7000000 INFO @ Thu, 05 Apr 2018 09:53:09: 8000000 INFO @ Thu, 05 Apr 2018 09:53:11: 8000000 INFO @ Thu, 05 Apr 2018 09:53:11: 8000000 INFO @ Thu, 05 Apr 2018 09:53:15: 9000000 INFO @ Thu, 05 Apr 2018 09:53:16: 9000000 INFO @ Thu, 05 Apr 2018 09:53:16: 9000000 INFO @ Thu, 05 Apr 2018 09:53:20: 10000000 INFO @ Thu, 05 Apr 2018 09:53:22: 10000000 INFO @ Thu, 05 Apr 2018 09:53:22: 10000000 INFO @ Thu, 05 Apr 2018 09:53:25: 11000000 INFO @ Thu, 05 Apr 2018 09:53:27: 11000000 INFO @ Thu, 05 Apr 2018 09:53:27: 11000000 INFO @ Thu, 05 Apr 2018 09:53:30: 12000000 INFO @ Thu, 05 Apr 2018 09:53:32: 12000000 INFO @ Thu, 05 Apr 2018 09:53:32: 12000000 INFO @ Thu, 05 Apr 2018 09:53:35: 13000000 INFO @ Thu, 05 Apr 2018 09:53:38: 13000000 INFO @ Thu, 05 Apr 2018 09:53:38: 13000000 INFO @ Thu, 05 Apr 2018 09:53:40: 14000000 INFO @ Thu, 05 Apr 2018 09:53:43: 14000000 INFO @ Thu, 05 Apr 2018 09:53:43: 14000000 INFO @ Thu, 05 Apr 2018 09:53:45: 15000000 INFO @ Thu, 05 Apr 2018 09:53:48: 15000000 INFO @ Thu, 05 Apr 2018 09:53:48: 15000000 INFO @ Thu, 05 Apr 2018 09:53:50: 16000000 INFO @ Thu, 05 Apr 2018 09:53:53: 16000000 INFO @ Thu, 05 Apr 2018 09:53:53: 16000000 INFO @ Thu, 05 Apr 2018 09:53:56: 17000000 INFO @ Thu, 05 Apr 2018 09:53:59: 17000000 INFO @ Thu, 05 Apr 2018 09:53:59: 17000000 INFO @ Thu, 05 Apr 2018 09:54:01: 18000000 INFO @ Thu, 05 Apr 2018 09:54:01: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:54:01: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:54:01: #1 total tags in treatment: 8804464 INFO @ Thu, 05 Apr 2018 09:54:01: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:54:01: #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 09:54:01: #1 tags after filtering in treatment: 6535624 INFO @ Thu, 05 Apr 2018 09:54:01: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:54:01: #1 finished! INFO @ Thu, 05 Apr 2018 09:54:01: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:54:01: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:54:02: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:54:02: 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 @ Thu, 05 Apr 2018 09:54:02: Process for pairing-model is terminated! cat: SRX3671166.05_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 `SRX3671166.05_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 `SRX3671166.05_*.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 `SRX3671166.05_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 @ Thu, 05 Apr 2018 09:54:04: 18000000 INFO @ Thu, 05 Apr 2018 09:54:04: 18000000 INFO @ Thu, 05 Apr 2018 09:54:05: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:54:05: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:54:05: #1 total tags in treatment: 8804464 INFO @ Thu, 05 Apr 2018 09:54:05: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:54:05: #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 09:54:05: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:54:05: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:54:05: #1 total tags in treatment: 8804464 INFO @ Thu, 05 Apr 2018 09:54:05: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:54:05: #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 09:54:05: #1 tags after filtering in treatment: 6535624 INFO @ Thu, 05 Apr 2018 09:54:05: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:54:05: #1 finished! INFO @ Thu, 05 Apr 2018 09:54:05: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:54:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:54:05: #1 tags after filtering in treatment: 6535624 INFO @ Thu, 05 Apr 2018 09:54:05: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:54:05: #1 finished! INFO @ Thu, 05 Apr 2018 09:54:05: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:54:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:54:05: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:54:05: 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 @ Thu, 05 Apr 2018 09:54:05: Process for pairing-model is terminated! cat: SRX3671166.10_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 @ Thu, 05 Apr 2018 09:54:05: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:54:05: 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 @ Thu, 05 Apr 2018 09:54:05: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671166.10_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 `SRX3671166.10_*.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 `SRX3671166.10_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 cat: SRX3671166.20_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 `SRX3671166.20_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 `SRX3671166.20_*.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 `SRX3671166.20_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。