Job ID = 1304749 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 1900-01-00T00:00:00 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-03T12:02:23 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 17,170,791 reads read : 17,170,791 reads written : 17,170,791 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: No such file or directory 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: 00:04:31 17170791 reads; of these: 17170791 (100.00%) were unpaired; of these: 2045488 (11.91%) aligned 0 times 10416344 (60.66%) aligned exactly 1 time 4708959 (27.42%) aligned >1 times 88.09% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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 8 files... [bam_rmdupse_core] 4651203 / 15125303 = 0.3075 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, 03 Jun 2019 21:11:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.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, 03 Jun 2019 21:11:31: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:11:31: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:11:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.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, 03 Jun 2019 21:11:31: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:11:31: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:11:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.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, 03 Jun 2019 21:11:32: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:11:32: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:11:39: 1000000 INFO @ Mon, 03 Jun 2019 21:11:41: 1000000 INFO @ Mon, 03 Jun 2019 21:11:41: 1000000 INFO @ Mon, 03 Jun 2019 21:11:46: 2000000 INFO @ Mon, 03 Jun 2019 21:11:50: 2000000 INFO @ Mon, 03 Jun 2019 21:11:50: 2000000 INFO @ Mon, 03 Jun 2019 21:11:53: 3000000 INFO @ Mon, 03 Jun 2019 21:11:58: 3000000 INFO @ Mon, 03 Jun 2019 21:11:58: 3000000 INFO @ Mon, 03 Jun 2019 21:12:00: 4000000 INFO @ Mon, 03 Jun 2019 21:12:06: 4000000 INFO @ Mon, 03 Jun 2019 21:12:06: 4000000 INFO @ Mon, 03 Jun 2019 21:12:06: 5000000 INFO @ Mon, 03 Jun 2019 21:12:13: 6000000 INFO @ Mon, 03 Jun 2019 21:12:14: 5000000 INFO @ Mon, 03 Jun 2019 21:12:14: 5000000 INFO @ Mon, 03 Jun 2019 21:12:20: 7000000 INFO @ Mon, 03 Jun 2019 21:12:23: 6000000 INFO @ Mon, 03 Jun 2019 21:12:23: 6000000 INFO @ Mon, 03 Jun 2019 21:12:27: 8000000 INFO @ Mon, 03 Jun 2019 21:12:31: 7000000 INFO @ Mon, 03 Jun 2019 21:12:31: 7000000 INFO @ Mon, 03 Jun 2019 21:12:34: 9000000 INFO @ Mon, 03 Jun 2019 21:12:39: 8000000 INFO @ Mon, 03 Jun 2019 21:12:39: 8000000 INFO @ Mon, 03 Jun 2019 21:12:41: 10000000 INFO @ Mon, 03 Jun 2019 21:12:44: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:12:44: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:12:44: #1 total tags in treatment: 10474100 INFO @ Mon, 03 Jun 2019 21:12:44: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:12:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 21:12:45: #1 tags after filtering in treatment: 10474100 INFO @ Mon, 03 Jun 2019 21:12:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:12:45: #1 finished! INFO @ Mon, 03 Jun 2019 21:12:45: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:12:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:12:45: #2 number of paired peaks: 92 WARNING @ Mon, 03 Jun 2019 21:12:45: Too few paired peaks (92) 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, 03 Jun 2019 21:12:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:12:47: 9000000 INFO @ Mon, 03 Jun 2019 21:12:47: 9000000 INFO @ Mon, 03 Jun 2019 21:12:56: 10000000 INFO @ Mon, 03 Jun 2019 21:12:56: 10000000 INFO @ Mon, 03 Jun 2019 21:13:00: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:13:00: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:13:00: #1 total tags in treatment: 10474100 INFO @ Mon, 03 Jun 2019 21:13:00: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:13:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 21:13:00: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:13:00: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:13:00: #1 total tags in treatment: 10474100 INFO @ Mon, 03 Jun 2019 21:13:00: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:13:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 21:13:00: #1 tags after filtering in treatment: 10474100 INFO @ Mon, 03 Jun 2019 21:13:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:13:00: #1 finished! INFO @ Mon, 03 Jun 2019 21:13:00: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:13:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:13:01: #1 tags after filtering in treatment: 10474100 INFO @ Mon, 03 Jun 2019 21:13:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:13:01: #1 finished! INFO @ Mon, 03 Jun 2019 21:13:01: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:13:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:13:01: #2 number of paired peaks: 92 WARNING @ Mon, 03 Jun 2019 21:13:01: Too few paired peaks (92) 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, 03 Jun 2019 21:13:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.05_peaks.narrowPeak: No such file or directory INFO @ Mon, 03 Jun 2019 21:13:01: #2 number of paired peaks: 92 WARNING @ Mon, 03 Jun 2019 21:13:01: Too few paired peaks (92) 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, 03 Jun 2019 21:13:01: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling cut: /home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495200/SRX495200.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。