Job ID = 9162419 sra ファイルのダウンロード中... Completed: 651591K bytes transferred in 10 seconds (489677K 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 7590795 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457699/SRR5138814.sra Written 7590795 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: 00:09:43 7590795 reads; of these: 7590795 (100.00%) were paired; of these: 427605 (5.63%) aligned concordantly 0 times 6423482 (84.62%) aligned concordantly exactly 1 time 739708 (9.74%) aligned concordantly >1 times ---- 427605 pairs aligned concordantly 0 times; of these: 182101 (42.59%) aligned discordantly 1 time ---- 245504 pairs aligned 0 times concordantly or discordantly; of these: 491008 mates make up the pairs; of these: 380489 (77.49%) aligned 0 times 59394 (12.10%) aligned exactly 1 time 51125 (10.41%) aligned >1 times 97.49% overall alignment rate Time searching: 00:09:43 Overall time: 00:09:43 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] 586096 / 7313316 = 0.0801 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 07:58:51: # Command line: callpeak -t SRX2457699.bam -f BAM -g 12100000 -n SRX2457699.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457699.10 # format = BAM # ChIP-seq file = ['SRX2457699.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 07:58:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:58:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:58:51: # Command line: callpeak -t SRX2457699.bam -f BAM -g 12100000 -n SRX2457699.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457699.20 # format = BAM # ChIP-seq file = ['SRX2457699.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 07:58:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:58:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:58:51: # Command line: callpeak -t SRX2457699.bam -f BAM -g 12100000 -n SRX2457699.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457699.05 # format = BAM # ChIP-seq file = ['SRX2457699.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 07:58:51: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:58:51: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:58:57: 1000000 INFO @ Wed, 28 Jun 2017 07:58:57: 1000000 INFO @ Wed, 28 Jun 2017 07:58:57: 1000000 INFO @ Wed, 28 Jun 2017 07:59:04: 2000000 INFO @ Wed, 28 Jun 2017 07:59:04: 2000000 INFO @ Wed, 28 Jun 2017 07:59:04: 2000000 INFO @ Wed, 28 Jun 2017 07:59:10: 3000000 INFO @ Wed, 28 Jun 2017 07:59:10: 3000000 INFO @ Wed, 28 Jun 2017 07:59:10: 3000000 INFO @ Wed, 28 Jun 2017 07:59:16: 4000000 INFO @ Wed, 28 Jun 2017 07:59:17: 4000000 INFO @ Wed, 28 Jun 2017 07:59:17: 4000000 INFO @ Wed, 28 Jun 2017 07:59:23: 5000000 INFO @ Wed, 28 Jun 2017 07:59:23: 5000000 INFO @ Wed, 28 Jun 2017 07:59:24: 5000000 INFO @ Wed, 28 Jun 2017 07:59:29: 6000000 INFO @ Wed, 28 Jun 2017 07:59:30: 6000000 INFO @ Wed, 28 Jun 2017 07:59:31: 6000000 INFO @ Wed, 28 Jun 2017 07:59:35: 7000000 INFO @ Wed, 28 Jun 2017 07:59:37: 7000000 INFO @ Wed, 28 Jun 2017 07:59:37: 7000000 INFO @ Wed, 28 Jun 2017 07:59:41: 8000000 INFO @ Wed, 28 Jun 2017 07:59:43: 8000000 INFO @ Wed, 28 Jun 2017 07:59:44: 8000000 INFO @ Wed, 28 Jun 2017 07:59:47: 9000000 INFO @ Wed, 28 Jun 2017 07:59:50: 9000000 INFO @ Wed, 28 Jun 2017 07:59:51: 9000000 INFO @ Wed, 28 Jun 2017 07:59:53: 10000000 INFO @ Wed, 28 Jun 2017 07:59:56: 10000000 INFO @ Wed, 28 Jun 2017 07:59:58: 10000000 INFO @ Wed, 28 Jun 2017 08:00:00: 11000000 INFO @ Wed, 28 Jun 2017 08:00:03: 11000000 INFO @ Wed, 28 Jun 2017 08:00:05: 11000000 INFO @ Wed, 28 Jun 2017 08:00:06: 12000000 INFO @ Wed, 28 Jun 2017 08:00:09: 12000000 INFO @ Wed, 28 Jun 2017 08:00:11: 12000000 INFO @ Wed, 28 Jun 2017 08:00:12: 13000000 INFO @ Wed, 28 Jun 2017 08:00:16: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:00:16: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:00:16: #1 total tags in treatment: 6581234 INFO @ Wed, 28 Jun 2017 08:00:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:00:16: #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 08:00:16: #1 tags after filtering in treatment: 4214978 INFO @ Wed, 28 Jun 2017 08:00:16: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 08:00:16: #1 finished! INFO @ Wed, 28 Jun 2017 08:00:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:00:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:00:16: 13000000 INFO @ Wed, 28 Jun 2017 08:00:16: #2 number of paired peaks: 1 WARNING @ Wed, 28 Jun 2017 08:00:16: Too few paired peaks (1) 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 08:00:16: Process for pairing-model is terminated! cat: SRX2457699.10_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 `SRX2457699.10_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 `SRX2457699.10_*.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 `SRX2457699.10_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 08:00:19: 13000000 INFO @ Wed, 28 Jun 2017 08:00:21: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:00:21: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:00:21: #1 total tags in treatment: 6581234 INFO @ Wed, 28 Jun 2017 08:00:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:00:21: #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 08:00:21: #1 tags after filtering in treatment: 4214978 INFO @ Wed, 28 Jun 2017 08:00:21: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 08:00:21: #1 finished! INFO @ Wed, 28 Jun 2017 08:00:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:00:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:00:21: #2 number of paired peaks: 1 WARNING @ Wed, 28 Jun 2017 08:00:21: Too few paired peaks (1) 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 08:00:21: Process for pairing-model is terminated! cat: SRX2457699.20_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 `SRX2457699.20_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 `SRX2457699.20_*.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 `SRX2457699.20_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 08:00:23: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:00:23: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:00:23: #1 total tags in treatment: 6581234 INFO @ Wed, 28 Jun 2017 08:00:23: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:00:23: #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 08:00:23: #1 tags after filtering in treatment: 4214978 INFO @ Wed, 28 Jun 2017 08:00:23: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 08:00:23: #1 finished! INFO @ Wed, 28 Jun 2017 08:00:23: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:00:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:00:23: #2 number of paired peaks: 1 WARNING @ Wed, 28 Jun 2017 08:00:23: Too few paired peaks (1) 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 08:00:23: Process for pairing-model is terminated! cat: SRX2457699.05_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 `SRX2457699.05_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 `SRX2457699.05_*.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 `SRX2457699.05_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。