Job ID = 2009711 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T10:35:18 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 ) 2019-07-05T10:35:32 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 41,078,553 reads read : 41,078,553 reads written : 41,078,553 rm: cannot remove ‘[DSE]RR*’: 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: 00:08:27 41078553 reads; of these: 41078553 (100.00%) were unpaired; of these: 5363437 (13.06%) aligned 0 times 28954728 (70.49%) aligned exactly 1 time 6760388 (16.46%) aligned >1 times 86.94% overall alignment rate Time searching: 00:08:27 Overall time: 00:08:28 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 16 files... [bam_rmdupse_core] 21803090 / 35715116 = 0.6105 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 @ Fri, 05 Jul 2019 20:17:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.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 @ Fri, 05 Jul 2019 20:17:18: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:17:18: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:17:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.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 @ Fri, 05 Jul 2019 20:17:19: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:17:19: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:17:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.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 @ Fri, 05 Jul 2019 20:17:20: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:17:20: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:17:27: 1000000 INFO @ Fri, 05 Jul 2019 20:17:28: 1000000 INFO @ Fri, 05 Jul 2019 20:17:28: 1000000 INFO @ Fri, 05 Jul 2019 20:17:36: 2000000 INFO @ Fri, 05 Jul 2019 20:17:37: 2000000 INFO @ Fri, 05 Jul 2019 20:17:37: 2000000 INFO @ Fri, 05 Jul 2019 20:17:43: 3000000 INFO @ Fri, 05 Jul 2019 20:17:45: 3000000 INFO @ Fri, 05 Jul 2019 20:17:46: 3000000 INFO @ Fri, 05 Jul 2019 20:17:51: 4000000 INFO @ Fri, 05 Jul 2019 20:17:53: 4000000 INFO @ Fri, 05 Jul 2019 20:17:54: 4000000 INFO @ Fri, 05 Jul 2019 20:17:59: 5000000 INFO @ Fri, 05 Jul 2019 20:18:00: 5000000 INFO @ Fri, 05 Jul 2019 20:18:03: 5000000 INFO @ Fri, 05 Jul 2019 20:18:07: 6000000 INFO @ Fri, 05 Jul 2019 20:18:09: 6000000 INFO @ Fri, 05 Jul 2019 20:18:11: 6000000 INFO @ Fri, 05 Jul 2019 20:18:15: 7000000 INFO @ Fri, 05 Jul 2019 20:18:17: 7000000 INFO @ Fri, 05 Jul 2019 20:18:19: 7000000 INFO @ Fri, 05 Jul 2019 20:18:24: 8000000 INFO @ Fri, 05 Jul 2019 20:18:26: 8000000 INFO @ Fri, 05 Jul 2019 20:18:28: 8000000 INFO @ Fri, 05 Jul 2019 20:18:31: 9000000 INFO @ Fri, 05 Jul 2019 20:18:36: 9000000 INFO @ Fri, 05 Jul 2019 20:18:36: 9000000 INFO @ Fri, 05 Jul 2019 20:18:40: 10000000 INFO @ Fri, 05 Jul 2019 20:18:44: 10000000 INFO @ Fri, 05 Jul 2019 20:18:46: 10000000 INFO @ Fri, 05 Jul 2019 20:18:48: 11000000 INFO @ Fri, 05 Jul 2019 20:18:53: 11000000 INFO @ Fri, 05 Jul 2019 20:18:55: 11000000 INFO @ Fri, 05 Jul 2019 20:18:56: 12000000 INFO @ Fri, 05 Jul 2019 20:19:01: 12000000 INFO @ Fri, 05 Jul 2019 20:19:04: 12000000 INFO @ Fri, 05 Jul 2019 20:19:05: 13000000 INFO @ Fri, 05 Jul 2019 20:19:10: 13000000 INFO @ Fri, 05 Jul 2019 20:19:12: 13000000 INFO @ Fri, 05 Jul 2019 20:19:12: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:19:12: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:19:12: #1 total tags in treatment: 13912026 INFO @ Fri, 05 Jul 2019 20:19:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:19:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:19:12: #1 tags after filtering in treatment: 13912026 INFO @ Fri, 05 Jul 2019 20:19:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:19:12: #1 finished! INFO @ Fri, 05 Jul 2019 20:19:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:19:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:19:14: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:19:14: 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 @ Fri, 05 Jul 2019 20:19:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.05_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/sacCer3/SRX1135891/SRX1135891.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:19:18: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:19:18: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:19:18: #1 total tags in treatment: 13912026 INFO @ Fri, 05 Jul 2019 20:19:18: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:19:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:19:18: #1 tags after filtering in treatment: 13912026 INFO @ Fri, 05 Jul 2019 20:19:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:19:18: #1 finished! INFO @ Fri, 05 Jul 2019 20:19:18: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:19:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:19:20: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:19:20: 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 @ Fri, 05 Jul 2019 20:19:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.10_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/sacCer3/SRX1135891/SRX1135891.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:19:20: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:19:20: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:19:20: #1 total tags in treatment: 13912026 INFO @ Fri, 05 Jul 2019 20:19:20: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:19:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:19:20: #1 tags after filtering in treatment: 13912026 INFO @ Fri, 05 Jul 2019 20:19:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:19:20: #1 finished! INFO @ Fri, 05 Jul 2019 20:19:20: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:19:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:19:21: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:19:21: 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 @ Fri, 05 Jul 2019 20:19:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.20_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/sacCer3/SRX1135891/SRX1135891.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1135891/SRX1135891.20_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。