Job ID = 9302954 sra ファイルのダウンロード中... Completed: 746686K bytes transferred in 16 seconds (366902K 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 13858911 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961327/SRR5761576.sra Written 13858911 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: 00:10:48 13858911 reads; of these: 13858911 (100.00%) were paired; of these: 904913 (6.53%) aligned concordantly 0 times 10848496 (78.28%) aligned concordantly exactly 1 time 2105502 (15.19%) aligned concordantly >1 times ---- 904913 pairs aligned concordantly 0 times; of these: 102988 (11.38%) aligned discordantly 1 time ---- 801925 pairs aligned 0 times concordantly or discordantly; of these: 1603850 mates make up the pairs; of these: 1260784 (78.61%) aligned 0 times 204061 (12.72%) aligned exactly 1 time 139005 (8.67%) aligned >1 times 95.45% overall alignment rate Time searching: 00:10:48 Overall time: 00:10:48 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] 1882083 / 12968067 = 0.1451 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 @ Fri, 28 Jul 2017 11:55:06: # Command line: callpeak -t SRX2961327.bam -f BAM -g 12100000 -n SRX2961327.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961327.20 # format = BAM # ChIP-seq file = ['SRX2961327.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 @ Fri, 28 Jul 2017 11:55:06: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:55:06: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:55:06: # Command line: callpeak -t SRX2961327.bam -f BAM -g 12100000 -n SRX2961327.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961327.10 # format = BAM # ChIP-seq file = ['SRX2961327.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 @ Fri, 28 Jul 2017 11:55:06: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:55:06: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:55:06: # Command line: callpeak -t SRX2961327.bam -f BAM -g 12100000 -n SRX2961327.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961327.05 # format = BAM # ChIP-seq file = ['SRX2961327.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 @ Fri, 28 Jul 2017 11:55:06: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:55:06: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:55:12: 1000000 INFO @ Fri, 28 Jul 2017 11:55:13: 1000000 INFO @ Fri, 28 Jul 2017 11:55:13: 1000000 INFO @ Fri, 28 Jul 2017 11:55:18: 2000000 INFO @ Fri, 28 Jul 2017 11:55:19: 2000000 INFO @ Fri, 28 Jul 2017 11:55:19: 2000000 INFO @ Fri, 28 Jul 2017 11:55:23: 3000000 INFO @ Fri, 28 Jul 2017 11:55:26: 3000000 INFO @ Fri, 28 Jul 2017 11:55:26: 3000000 INFO @ Fri, 28 Jul 2017 11:55:29: 4000000 INFO @ Fri, 28 Jul 2017 11:55:32: 4000000 INFO @ Fri, 28 Jul 2017 11:55:32: 4000000 INFO @ Fri, 28 Jul 2017 11:55:35: 5000000 INFO @ Fri, 28 Jul 2017 11:55:38: 5000000 INFO @ Fri, 28 Jul 2017 11:55:38: 5000000 INFO @ Fri, 28 Jul 2017 11:55:41: 6000000 INFO @ Fri, 28 Jul 2017 11:55:45: 6000000 INFO @ Fri, 28 Jul 2017 11:55:45: 6000000 INFO @ Fri, 28 Jul 2017 11:55:46: 7000000 INFO @ Fri, 28 Jul 2017 11:55:51: 7000000 INFO @ Fri, 28 Jul 2017 11:55:51: 7000000 INFO @ Fri, 28 Jul 2017 11:55:52: 8000000 INFO @ Fri, 28 Jul 2017 11:55:58: 8000000 INFO @ Fri, 28 Jul 2017 11:55:58: 8000000 INFO @ Fri, 28 Jul 2017 11:55:58: 9000000 INFO @ Fri, 28 Jul 2017 11:56:04: 10000000 INFO @ Fri, 28 Jul 2017 11:56:04: 9000000 INFO @ Fri, 28 Jul 2017 11:56:04: 9000000 INFO @ Fri, 28 Jul 2017 11:56:09: 11000000 INFO @ Fri, 28 Jul 2017 11:56:11: 10000000 INFO @ Fri, 28 Jul 2017 11:56:11: 10000000 INFO @ Fri, 28 Jul 2017 11:56:15: 12000000 INFO @ Fri, 28 Jul 2017 11:56:17: 11000000 INFO @ Fri, 28 Jul 2017 11:56:17: 11000000 INFO @ Fri, 28 Jul 2017 11:56:21: 13000000 INFO @ Fri, 28 Jul 2017 11:56:24: 12000000 INFO @ Fri, 28 Jul 2017 11:56:24: 12000000 INFO @ Fri, 28 Jul 2017 11:56:27: 14000000 INFO @ Fri, 28 Jul 2017 11:56:30: 13000000 INFO @ Fri, 28 Jul 2017 11:56:30: 13000000 INFO @ Fri, 28 Jul 2017 11:56:32: 15000000 INFO @ Fri, 28 Jul 2017 11:56:36: 14000000 INFO @ Fri, 28 Jul 2017 11:56:36: 14000000 INFO @ Fri, 28 Jul 2017 11:56:38: 16000000 INFO @ Fri, 28 Jul 2017 11:56:43: 15000000 INFO @ Fri, 28 Jul 2017 11:56:43: 15000000 INFO @ Fri, 28 Jul 2017 11:56:44: 17000000 INFO @ Fri, 28 Jul 2017 11:56:49: 16000000 INFO @ Fri, 28 Jul 2017 11:56:49: 16000000 INFO @ Fri, 28 Jul 2017 11:56:50: 18000000 INFO @ Fri, 28 Jul 2017 11:56:55: 19000000 INFO @ Fri, 28 Jul 2017 11:56:56: 17000000 INFO @ Fri, 28 Jul 2017 11:56:56: 17000000 INFO @ Fri, 28 Jul 2017 11:57:01: 20000000 INFO @ Fri, 28 Jul 2017 11:57:02: 18000000 INFO @ Fri, 28 Jul 2017 11:57:02: 18000000 INFO @ Fri, 28 Jul 2017 11:57:07: 21000000 INFO @ Fri, 28 Jul 2017 11:57:09: 19000000 INFO @ Fri, 28 Jul 2017 11:57:09: 19000000 INFO @ Fri, 28 Jul 2017 11:57:14: 22000000 INFO @ Fri, 28 Jul 2017 11:57:17: 20000000 INFO @ Fri, 28 Jul 2017 11:57:17: 20000000 INFO @ Fri, 28 Jul 2017 11:57:19: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:57:19: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:57:19: #1 total tags in treatment: 11072463 INFO @ Fri, 28 Jul 2017 11:57:19: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:57:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:57:19: #1 tags after filtering in treatment: 5782369 INFO @ Fri, 28 Jul 2017 11:57:19: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 28 Jul 2017 11:57:19: #1 finished! INFO @ Fri, 28 Jul 2017 11:57:19: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:57:19: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:57:19: 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 @ Fri, 28 Jul 2017 11:57:19: Process for pairing-model is terminated! cat: SRX2961327.20_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 `SRX2961327.20_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 `SRX2961327.20_*.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 `SRX2961327.20_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 @ Fri, 28 Jul 2017 11:57:24: 21000000 INFO @ Fri, 28 Jul 2017 11:57:24: 21000000 INFO @ Fri, 28 Jul 2017 11:57:32: 22000000 INFO @ Fri, 28 Jul 2017 11:57:32: 22000000 INFO @ Fri, 28 Jul 2017 11:57:37: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:57:37: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:57:37: #1 total tags in treatment: 11072463 INFO @ Fri, 28 Jul 2017 11:57:37: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:57:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:57:37: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:57:37: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:57:37: #1 total tags in treatment: 11072463 INFO @ Fri, 28 Jul 2017 11:57:37: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:57:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:57:37: #1 tags after filtering in treatment: 5782369 INFO @ Fri, 28 Jul 2017 11:57:37: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 28 Jul 2017 11:57:37: #1 finished! INFO @ Fri, 28 Jul 2017 11:57:37: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:57:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:57:37: #1 tags after filtering in treatment: 5782369 INFO @ Fri, 28 Jul 2017 11:57:37: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 28 Jul 2017 11:57:37: #1 finished! INFO @ Fri, 28 Jul 2017 11:57:37: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:57:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:57:38: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:57:38: 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 @ Fri, 28 Jul 2017 11:57:38: Process for pairing-model is terminated! INFO @ Fri, 28 Jul 2017 11:57:38: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:57:38: 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 @ Fri, 28 Jul 2017 11:57:38: Process for pairing-model is terminated! cat: SRX2961327.05_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: SRX2961327.10_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) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2961327.05_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 `SRX2961327.05_*.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 `SRX2961327.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2961327.10_model.r': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling rm: cannot remove `SRX2961327.10_*.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 `SRX2961327.10_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。