Job ID = 10175267 sra ファイルのダウンロード中... Completed: 1267655K bytes transferred in 30 seconds (342704K 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: SINGLE fastq に変換中... Written 69945224 spots for /home/okishinya/chipatlas/results/dm3/SRX3159470/SRR6004200.sra Written 69945224 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: 00:24:07 69945224 reads; of these: 69945224 (100.00%) were unpaired; of these: 2100152 (3.00%) aligned 0 times 55180340 (78.89%) aligned exactly 1 time 12664732 (18.11%) aligned >1 times 97.00% overall alignment rate Time searching: 00:24:07 Overall time: 00:24:07 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 28 files... [bam_rmdupse_core] 28181161 / 67845072 = 0.4154 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 @ Mon, 06 Nov 2017 12:58:22: # Command line: callpeak -t SRX3159470.bam -f BAM -g dm -n SRX3159470.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3159470.20 # format = BAM # ChIP-seq file = ['SRX3159470.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Nov 2017 12:58:22: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:58:22: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:58:22: # Command line: callpeak -t SRX3159470.bam -f BAM -g dm -n SRX3159470.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3159470.05 # format = BAM # ChIP-seq file = ['SRX3159470.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Nov 2017 12:58:22: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:58:22: # Command line: callpeak -t SRX3159470.bam -f BAM -g dm -n SRX3159470.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3159470.10 # format = BAM # ChIP-seq file = ['SRX3159470.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Nov 2017 12:58:22: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:58:22: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:58:22: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:58:29: 1000000 INFO @ Mon, 06 Nov 2017 12:58:29: 1000000 INFO @ Mon, 06 Nov 2017 12:58:29: 1000000 INFO @ Mon, 06 Nov 2017 12:58:37: 2000000 INFO @ Mon, 06 Nov 2017 12:58:37: 2000000 INFO @ Mon, 06 Nov 2017 12:58:37: 2000000 INFO @ Mon, 06 Nov 2017 12:58:44: 3000000 INFO @ Mon, 06 Nov 2017 12:58:44: 3000000 INFO @ Mon, 06 Nov 2017 12:58:44: 3000000 INFO @ Mon, 06 Nov 2017 12:58:51: 4000000 INFO @ Mon, 06 Nov 2017 12:58:51: 4000000 INFO @ Mon, 06 Nov 2017 12:58:52: 4000000 INFO @ Mon, 06 Nov 2017 12:58:58: 5000000 INFO @ Mon, 06 Nov 2017 12:58:58: 5000000 INFO @ Mon, 06 Nov 2017 12:58:59: 5000000 INFO @ Mon, 06 Nov 2017 12:59:05: 6000000 INFO @ Mon, 06 Nov 2017 12:59:05: 6000000 INFO @ Mon, 06 Nov 2017 12:59:07: 6000000 INFO @ Mon, 06 Nov 2017 12:59:12: 7000000 INFO @ Mon, 06 Nov 2017 12:59:12: 7000000 INFO @ Mon, 06 Nov 2017 12:59:15: 7000000 INFO @ Mon, 06 Nov 2017 12:59:19: 8000000 INFO @ Mon, 06 Nov 2017 12:59:19: 8000000 INFO @ Mon, 06 Nov 2017 12:59:23: 8000000 INFO @ Mon, 06 Nov 2017 12:59:26: 9000000 INFO @ Mon, 06 Nov 2017 12:59:26: 9000000 INFO @ Mon, 06 Nov 2017 12:59:30: 9000000 INFO @ Mon, 06 Nov 2017 12:59:33: 10000000 INFO @ Mon, 06 Nov 2017 12:59:33: 10000000 INFO @ Mon, 06 Nov 2017 12:59:38: 10000000 INFO @ Mon, 06 Nov 2017 12:59:40: 11000000 INFO @ Mon, 06 Nov 2017 12:59:40: 11000000 INFO @ Mon, 06 Nov 2017 12:59:46: 11000000 INFO @ Mon, 06 Nov 2017 12:59:47: 12000000 INFO @ Mon, 06 Nov 2017 12:59:47: 12000000 INFO @ Mon, 06 Nov 2017 12:59:54: 13000000 INFO @ Mon, 06 Nov 2017 12:59:54: 13000000 INFO @ Mon, 06 Nov 2017 12:59:54: 12000000 INFO @ Mon, 06 Nov 2017 13:00:01: 14000000 INFO @ Mon, 06 Nov 2017 13:00:01: 14000000 INFO @ Mon, 06 Nov 2017 13:00:01: 13000000 INFO @ Mon, 06 Nov 2017 13:00:08: 15000000 INFO @ Mon, 06 Nov 2017 13:00:08: 15000000 INFO @ Mon, 06 Nov 2017 13:00:09: 14000000 INFO @ Mon, 06 Nov 2017 13:00:15: 16000000 INFO @ Mon, 06 Nov 2017 13:00:15: 16000000 INFO @ Mon, 06 Nov 2017 13:00:17: 15000000 INFO @ Mon, 06 Nov 2017 13:00:22: 17000000 INFO @ Mon, 06 Nov 2017 13:00:22: 17000000 INFO @ Mon, 06 Nov 2017 13:00:24: 16000000 INFO @ Mon, 06 Nov 2017 13:00:29: 18000000 INFO @ Mon, 06 Nov 2017 13:00:29: 18000000 INFO @ Mon, 06 Nov 2017 13:00:32: 17000000 INFO @ Mon, 06 Nov 2017 13:00:35: 19000000 INFO @ Mon, 06 Nov 2017 13:00:35: 19000000 INFO @ Mon, 06 Nov 2017 13:00:40: 18000000 INFO @ Mon, 06 Nov 2017 13:00:42: 20000000 INFO @ Mon, 06 Nov 2017 13:00:42: 20000000 INFO @ Mon, 06 Nov 2017 13:00:48: 19000000 INFO @ Mon, 06 Nov 2017 13:00:49: 21000000 INFO @ Mon, 06 Nov 2017 13:00:49: 21000000 INFO @ Mon, 06 Nov 2017 13:00:55: 20000000 INFO @ Mon, 06 Nov 2017 13:00:56: 22000000 INFO @ Mon, 06 Nov 2017 13:00:56: 22000000 INFO @ Mon, 06 Nov 2017 13:01:03: 23000000 INFO @ Mon, 06 Nov 2017 13:01:03: 23000000 INFO @ Mon, 06 Nov 2017 13:01:03: 21000000 INFO @ Mon, 06 Nov 2017 13:01:10: 24000000 INFO @ Mon, 06 Nov 2017 13:01:10: 24000000 INFO @ Mon, 06 Nov 2017 13:01:11: 22000000 INFO @ Mon, 06 Nov 2017 13:01:17: 25000000 INFO @ Mon, 06 Nov 2017 13:01:17: 25000000 INFO @ Mon, 06 Nov 2017 13:01:19: 23000000 INFO @ Mon, 06 Nov 2017 13:01:24: 26000000 INFO @ Mon, 06 Nov 2017 13:01:24: 26000000 INFO @ Mon, 06 Nov 2017 13:01:26: 24000000 INFO @ Mon, 06 Nov 2017 13:01:30: 27000000 INFO @ Mon, 06 Nov 2017 13:01:30: 27000000 INFO @ Mon, 06 Nov 2017 13:01:34: 25000000 INFO @ Mon, 06 Nov 2017 13:01:37: 28000000 INFO @ Mon, 06 Nov 2017 13:01:37: 28000000 INFO @ Mon, 06 Nov 2017 13:01:42: 26000000 INFO @ Mon, 06 Nov 2017 13:01:44: 29000000 INFO @ Mon, 06 Nov 2017 13:01:44: 29000000 INFO @ Mon, 06 Nov 2017 13:01:50: 27000000 INFO @ Mon, 06 Nov 2017 13:01:51: 30000000 INFO @ Mon, 06 Nov 2017 13:01:51: 30000000 INFO @ Mon, 06 Nov 2017 13:01:57: 28000000 INFO @ Mon, 06 Nov 2017 13:01:58: 31000000 INFO @ Mon, 06 Nov 2017 13:01:58: 31000000 INFO @ Mon, 06 Nov 2017 13:02:05: 29000000 INFO @ Mon, 06 Nov 2017 13:02:05: 32000000 INFO @ Mon, 06 Nov 2017 13:02:05: 32000000 INFO @ Mon, 06 Nov 2017 13:02:12: 33000000 INFO @ Mon, 06 Nov 2017 13:02:12: 33000000 INFO @ Mon, 06 Nov 2017 13:02:13: 30000000 INFO @ Mon, 06 Nov 2017 13:02:19: 34000000 INFO @ Mon, 06 Nov 2017 13:02:19: 34000000 INFO @ Mon, 06 Nov 2017 13:02:20: 31000000 INFO @ Mon, 06 Nov 2017 13:02:26: 35000000 INFO @ Mon, 06 Nov 2017 13:02:26: 35000000 INFO @ Mon, 06 Nov 2017 13:02:28: 32000000 INFO @ Mon, 06 Nov 2017 13:02:33: 36000000 INFO @ Mon, 06 Nov 2017 13:02:33: 36000000 INFO @ Mon, 06 Nov 2017 13:02:36: 33000000 INFO @ Mon, 06 Nov 2017 13:02:40: 37000000 INFO @ Mon, 06 Nov 2017 13:02:40: 37000000 INFO @ Mon, 06 Nov 2017 13:02:44: 34000000 INFO @ Mon, 06 Nov 2017 13:02:47: 38000000 INFO @ Mon, 06 Nov 2017 13:02:47: 38000000 INFO @ Mon, 06 Nov 2017 13:02:51: 35000000 INFO @ Mon, 06 Nov 2017 13:02:54: 39000000 INFO @ Mon, 06 Nov 2017 13:02:54: 39000000 INFO @ Mon, 06 Nov 2017 13:02:59: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 13:02:59: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 13:02:59: #1 total tags in treatment: 39663911 INFO @ Mon, 06 Nov 2017 13:02:59: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 13:02:59: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 13:02:59: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 13:02:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 13:02:59: #1 total tags in treatment: 39663911 INFO @ Mon, 06 Nov 2017 13:02:59: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 13:02:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 13:02:59: 36000000 INFO @ Mon, 06 Nov 2017 13:03:00: #1 tags after filtering in treatment: 39663911 INFO @ Mon, 06 Nov 2017 13:03:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 13:03:00: #1 finished! INFO @ Mon, 06 Nov 2017 13:03:00: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 13:03:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 13:03:00: #1 tags after filtering in treatment: 39663911 INFO @ Mon, 06 Nov 2017 13:03:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 13:03:00: #1 finished! INFO @ Mon, 06 Nov 2017 13:03:00: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 13:03:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 13:03:02: #2 number of paired peaks: 5 WARNING @ Mon, 06 Nov 2017 13:03:02: Too few paired peaks (5) 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 @ Mon, 06 Nov 2017 13:03:02: Process for pairing-model is terminated! cat: SRX3159470.10_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 `SRX3159470.10_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 `SRX3159470.10_*.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 `SRX3159470.10_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 @ Mon, 06 Nov 2017 13:03:03: #2 number of paired peaks: 5 WARNING @ Mon, 06 Nov 2017 13:03:03: Too few paired peaks (5) 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 @ Mon, 06 Nov 2017 13:03:03: Process for pairing-model is terminated! cat: SRX3159470.05_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 `SRX3159470.05_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 `SRX3159470.05_*.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 `SRX3159470.05_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 @ Mon, 06 Nov 2017 13:03:06: 37000000 INFO @ Mon, 06 Nov 2017 13:03:13: 38000000 INFO @ Mon, 06 Nov 2017 13:03:19: 39000000 INFO @ Mon, 06 Nov 2017 13:03:24: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 13:03:24: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 13:03:24: #1 total tags in treatment: 39663911 INFO @ Mon, 06 Nov 2017 13:03:24: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 13:03:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 13:03:25: #1 tags after filtering in treatment: 39663911 INFO @ Mon, 06 Nov 2017 13:03:25: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 13:03:25: #1 finished! INFO @ Mon, 06 Nov 2017 13:03:25: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 13:03:25: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 13:03:27: #2 number of paired peaks: 5 WARNING @ Mon, 06 Nov 2017 13:03:27: Too few paired peaks (5) 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 @ Mon, 06 Nov 2017 13:03:27: Process for pairing-model is terminated! cat: SRX3159470.20_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 `SRX3159470.20_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 `SRX3159470.20_*.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 `SRX3159470.20_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。