Job ID = 9162406 sra ファイルのダウンロード中... Completed: 1408185K bytes transferred in 21 seconds (544258K 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 9472301 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457686/SRR5138801.sra Written 9472301 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: 00:12:12 9472301 reads; of these: 9472301 (100.00%) were paired; of these: 379523 (4.01%) aligned concordantly 0 times 8531649 (90.07%) aligned concordantly exactly 1 time 561129 (5.92%) aligned concordantly >1 times ---- 379523 pairs aligned concordantly 0 times; of these: 49827 (13.13%) aligned discordantly 1 time ---- 329696 pairs aligned 0 times concordantly or discordantly; of these: 659392 mates make up the pairs; of these: 555858 (84.30%) aligned 0 times 87802 (13.32%) aligned exactly 1 time 15732 (2.39%) aligned >1 times 97.07% overall alignment rate Time searching: 00:12:12 Overall time: 00:12:12 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 8 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] 489870 / 9113105 = 0.0538 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 08:02:30: # Command line: callpeak -t SRX2457686.bam -f BAM -g 12100000 -n SRX2457686.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457686.10 # format = BAM # ChIP-seq file = ['SRX2457686.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 08:02:30: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:30: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:30: # Command line: callpeak -t SRX2457686.bam -f BAM -g 12100000 -n SRX2457686.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457686.20 # format = BAM # ChIP-seq file = ['SRX2457686.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 08:02:30: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:30: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:30: # Command line: callpeak -t SRX2457686.bam -f BAM -g 12100000 -n SRX2457686.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457686.05 # format = BAM # ChIP-seq file = ['SRX2457686.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 08:02:30: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:30: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:37: 1000000 INFO @ Wed, 28 Jun 2017 08:02:38: 1000000 INFO @ Wed, 28 Jun 2017 08:02:38: 1000000 INFO @ Wed, 28 Jun 2017 08:02:45: 2000000 INFO @ Wed, 28 Jun 2017 08:02:46: 2000000 INFO @ Wed, 28 Jun 2017 08:02:46: 2000000 INFO @ Wed, 28 Jun 2017 08:02:52: 3000000 INFO @ Wed, 28 Jun 2017 08:02:54: 3000000 INFO @ Wed, 28 Jun 2017 08:02:55: 3000000 INFO @ Wed, 28 Jun 2017 08:03:00: 4000000 INFO @ Wed, 28 Jun 2017 08:03:03: 4000000 INFO @ Wed, 28 Jun 2017 08:03:04: 4000000 INFO @ Wed, 28 Jun 2017 08:03:07: 5000000 INFO @ Wed, 28 Jun 2017 08:03:11: 5000000 INFO @ Wed, 28 Jun 2017 08:03:12: 5000000 INFO @ Wed, 28 Jun 2017 08:03:15: 6000000 INFO @ Wed, 28 Jun 2017 08:03:20: 6000000 INFO @ Wed, 28 Jun 2017 08:03:21: 6000000 INFO @ Wed, 28 Jun 2017 08:03:23: 7000000 INFO @ Wed, 28 Jun 2017 08:03:28: 7000000 INFO @ Wed, 28 Jun 2017 08:03:29: 7000000 INFO @ Wed, 28 Jun 2017 08:03:30: 8000000 INFO @ Wed, 28 Jun 2017 08:03:37: 8000000 INFO @ Wed, 28 Jun 2017 08:03:38: 8000000 INFO @ Wed, 28 Jun 2017 08:03:38: 9000000 INFO @ Wed, 28 Jun 2017 08:03:45: 9000000 INFO @ Wed, 28 Jun 2017 08:03:45: 10000000 INFO @ Wed, 28 Jun 2017 08:03:46: 9000000 INFO @ Wed, 28 Jun 2017 08:03:53: 10000000 INFO @ Wed, 28 Jun 2017 08:03:53: 10000000 INFO @ Wed, 28 Jun 2017 08:03:53: 11000000 INFO @ Wed, 28 Jun 2017 08:04:02: 11000000 INFO @ Wed, 28 Jun 2017 08:04:02: 11000000 INFO @ Wed, 28 Jun 2017 08:04:03: 12000000 INFO @ Wed, 28 Jun 2017 08:04:13: 12000000 INFO @ Wed, 28 Jun 2017 08:04:13: 12000000 INFO @ Wed, 28 Jun 2017 08:04:14: 13000000 INFO @ Wed, 28 Jun 2017 08:04:24: 13000000 INFO @ Wed, 28 Jun 2017 08:04:25: 13000000 INFO @ Wed, 28 Jun 2017 08:04:27: 14000000 INFO @ Wed, 28 Jun 2017 08:04:35: 14000000 INFO @ Wed, 28 Jun 2017 08:04:36: 14000000 INFO @ Wed, 28 Jun 2017 08:04:39: 15000000 INFO @ Wed, 28 Jun 2017 08:04:46: 15000000 INFO @ Wed, 28 Jun 2017 08:04:46: 15000000 INFO @ Wed, 28 Jun 2017 08:04:49: 16000000 INFO @ Wed, 28 Jun 2017 08:04:55: 16000000 INFO @ Wed, 28 Jun 2017 08:04:56: 16000000 INFO @ Wed, 28 Jun 2017 08:04:59: 17000000 INFO @ Wed, 28 Jun 2017 08:05:03: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:03: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:03: #1 total tags in treatment: 8602990 INFO @ Wed, 28 Jun 2017 08:05:03: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:03: #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 08:05:03: #1 tags after filtering in treatment: 5168265 INFO @ Wed, 28 Jun 2017 08:05:03: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 28 Jun 2017 08:05:03: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:03: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:03: 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 08:05:03: Process for pairing-model is terminated! cat: SRX2457686.20_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 `SRX2457686.20_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 `SRX2457686.20_*.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 `SRX2457686.20_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 08:05:05: 17000000 INFO @ Wed, 28 Jun 2017 08:05:05: 17000000 INFO @ Wed, 28 Jun 2017 08:05:09: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:09: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:09: #1 total tags in treatment: 8602990 INFO @ Wed, 28 Jun 2017 08:05:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:09: #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 08:05:09: #1 tags after filtering in treatment: 5168265 INFO @ Wed, 28 Jun 2017 08:05:09: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 28 Jun 2017 08:05:09: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:09: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:09: 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 08:05:09: Process for pairing-model is terminated! cat: SRX2457686.10_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 `SRX2457686.10_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 `SRX2457686.10_*.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 `SRX2457686.10_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 08:05:09: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:09: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:09: #1 total tags in treatment: 8602990 INFO @ Wed, 28 Jun 2017 08:05:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:09: #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 08:05:10: #1 tags after filtering in treatment: 5168265 INFO @ Wed, 28 Jun 2017 08:05:10: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 28 Jun 2017 08:05:10: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:10: 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 08:05:10: Process for pairing-model is terminated! cat: SRX2457686.05_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 `SRX2457686.05_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 `SRX2457686.05_*.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 `SRX2457686.05_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。