Job ID = 9161966 sra ファイルのダウンロード中... Completed: 1055650K bytes transferred in 11 seconds (774190K 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 25370469 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423698/SRR2930987.sra Written 25370469 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: 00:19:27 25370469 reads; of these: 25370469 (100.00%) were paired; of these: 976777 (3.85%) aligned concordantly 0 times 21828491 (86.04%) aligned concordantly exactly 1 time 2565201 (10.11%) aligned concordantly >1 times ---- 976777 pairs aligned concordantly 0 times; of these: 32946 (3.37%) aligned discordantly 1 time ---- 943831 pairs aligned 0 times concordantly or discordantly; of these: 1887662 mates make up the pairs; of these: 1642636 (87.02%) aligned 0 times 202886 (10.75%) aligned exactly 1 time 42140 (2.23%) aligned >1 times 96.76% overall alignment rate Time searching: 00:19:28 Overall time: 00:19:28 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] 13533740 / 24398494 = 0.5547 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 05:36:51: # Command line: callpeak -t SRX1423698.bam -f BAM -g 12100000 -n SRX1423698.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423698.10 # format = BAM # ChIP-seq file = ['SRX1423698.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 05:36:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:51: # Command line: callpeak -t SRX1423698.bam -f BAM -g 12100000 -n SRX1423698.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423698.05 # format = BAM # ChIP-seq file = ['SRX1423698.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 05:36:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:51: # Command line: callpeak -t SRX1423698.bam -f BAM -g 12100000 -n SRX1423698.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423698.20 # format = BAM # ChIP-seq file = ['SRX1423698.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 05:36:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:57: 1000000 INFO @ Wed, 28 Jun 2017 05:36:58: 1000000 INFO @ Wed, 28 Jun 2017 05:36:58: 1000000 INFO @ Wed, 28 Jun 2017 05:37:03: 2000000 INFO @ Wed, 28 Jun 2017 05:37:04: 2000000 INFO @ Wed, 28 Jun 2017 05:37:04: 2000000 INFO @ Wed, 28 Jun 2017 05:37:09: 3000000 INFO @ Wed, 28 Jun 2017 05:37:11: 3000000 INFO @ Wed, 28 Jun 2017 05:37:11: 3000000 INFO @ Wed, 28 Jun 2017 05:37:16: 4000000 INFO @ Wed, 28 Jun 2017 05:37:17: 4000000 INFO @ Wed, 28 Jun 2017 05:37:17: 4000000 INFO @ Wed, 28 Jun 2017 05:37:22: 5000000 INFO @ Wed, 28 Jun 2017 05:37:24: 5000000 INFO @ Wed, 28 Jun 2017 05:37:24: 5000000 INFO @ Wed, 28 Jun 2017 05:37:28: 6000000 INFO @ Wed, 28 Jun 2017 05:37:32: 6000000 INFO @ Wed, 28 Jun 2017 05:37:32: 6000000 INFO @ Wed, 28 Jun 2017 05:37:36: 7000000 INFO @ Wed, 28 Jun 2017 05:37:40: 7000000 INFO @ Wed, 28 Jun 2017 05:37:40: 7000000 INFO @ Wed, 28 Jun 2017 05:37:43: 8000000 INFO @ Wed, 28 Jun 2017 05:37:48: 8000000 INFO @ Wed, 28 Jun 2017 05:37:48: 8000000 INFO @ Wed, 28 Jun 2017 05:37:51: 9000000 INFO @ Wed, 28 Jun 2017 05:37:56: 9000000 INFO @ Wed, 28 Jun 2017 05:37:56: 9000000 INFO @ Wed, 28 Jun 2017 05:37:58: 10000000 INFO @ Wed, 28 Jun 2017 05:38:03: 10000000 INFO @ Wed, 28 Jun 2017 05:38:03: 10000000 INFO @ Wed, 28 Jun 2017 05:38:06: 11000000 INFO @ Wed, 28 Jun 2017 05:38:11: 11000000 INFO @ Wed, 28 Jun 2017 05:38:11: 11000000 INFO @ Wed, 28 Jun 2017 05:38:13: 12000000 INFO @ Wed, 28 Jun 2017 05:38:18: 12000000 INFO @ Wed, 28 Jun 2017 05:38:18: 12000000 INFO @ Wed, 28 Jun 2017 05:38:19: 13000000 INFO @ Wed, 28 Jun 2017 05:38:25: 13000000 INFO @ Wed, 28 Jun 2017 05:38:25: 13000000 INFO @ Wed, 28 Jun 2017 05:38:25: 14000000 INFO @ Wed, 28 Jun 2017 05:38:31: 15000000 INFO @ Wed, 28 Jun 2017 05:38:31: 14000000 INFO @ Wed, 28 Jun 2017 05:38:31: 14000000 INFO @ Wed, 28 Jun 2017 05:38:37: 16000000 INFO @ Wed, 28 Jun 2017 05:38:38: 15000000 INFO @ Wed, 28 Jun 2017 05:38:38: 15000000 INFO @ Wed, 28 Jun 2017 05:38:43: 17000000 INFO @ Wed, 28 Jun 2017 05:38:44: 16000000 INFO @ Wed, 28 Jun 2017 05:38:44: 16000000 INFO @ Wed, 28 Jun 2017 05:38:49: 18000000 INFO @ Wed, 28 Jun 2017 05:38:51: 17000000 INFO @ Wed, 28 Jun 2017 05:38:51: 17000000 INFO @ Wed, 28 Jun 2017 05:38:55: 19000000 INFO @ Wed, 28 Jun 2017 05:38:58: 18000000 INFO @ Wed, 28 Jun 2017 05:38:58: 18000000 INFO @ Wed, 28 Jun 2017 05:39:01: 20000000 INFO @ Wed, 28 Jun 2017 05:39:04: 19000000 INFO @ Wed, 28 Jun 2017 05:39:04: 19000000 INFO @ Wed, 28 Jun 2017 05:39:08: 21000000 INFO @ Wed, 28 Jun 2017 05:39:11: 20000000 INFO @ Wed, 28 Jun 2017 05:39:11: 20000000 INFO @ Wed, 28 Jun 2017 05:39:14: 22000000 INFO @ Wed, 28 Jun 2017 05:39:14: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:39:14: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:39:14: #1 total tags in treatment: 10861613 INFO @ Wed, 28 Jun 2017 05:39:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:39:14: #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 05:39:14: #1 tags after filtering in treatment: 8130352 INFO @ Wed, 28 Jun 2017 05:39:14: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 28 Jun 2017 05:39:14: #1 finished! INFO @ Wed, 28 Jun 2017 05:39:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:39:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:39:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:39:15: 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 05:39:15: Process for pairing-model is terminated! cat: SRX1423698.10_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 `SRX1423698.10_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 `SRX1423698.10_*.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 `SRX1423698.10_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 05:39:18: 21000000 INFO @ Wed, 28 Jun 2017 05:39:18: 21000000 INFO @ Wed, 28 Jun 2017 05:39:24: 22000000 INFO @ Wed, 28 Jun 2017 05:39:24: 22000000 INFO @ Wed, 28 Jun 2017 05:39:24: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:39:24: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:39:24: #1 total tags in treatment: 10861613 INFO @ Wed, 28 Jun 2017 05:39:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:39:24: #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 05:39:24: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:39:24: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:39:24: #1 total tags in treatment: 10861613 INFO @ Wed, 28 Jun 2017 05:39:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:39:24: #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 05:39:24: #1 tags after filtering in treatment: 8130352 INFO @ Wed, 28 Jun 2017 05:39:24: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 28 Jun 2017 05:39:24: #1 finished! INFO @ Wed, 28 Jun 2017 05:39:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:39:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:39:24: #1 tags after filtering in treatment: 8130352 INFO @ Wed, 28 Jun 2017 05:39:24: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 28 Jun 2017 05:39:24: #1 finished! INFO @ Wed, 28 Jun 2017 05:39:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:39:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:39:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:39:25: 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 05:39:25: Process for pairing-model is terminated! cat: SRX1423698.20_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 `SRX1423698.20_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 `SRX1423698.20_*.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 `SRX1423698.20_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 05:39:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:39:25: 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 05:39:25: Process for pairing-model is terminated! cat: SRX1423698.05_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 `SRX1423698.05_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 `SRX1423698.05_*.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 `SRX1423698.05_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。