Job ID = 2009866 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:11:59 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 ) 2019-07-05T11:11:59 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 ) 2019-07-05T11:22:44 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 ) 2019-07-05T11:24:33 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 ) 2019-07-05T11:25:12 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 ) 2019-07-05T11:25:12 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 ) 2019-07-05T11:27:29 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 ) 2019-07-05T11:34:11 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 : 39,910,215 reads read : 39,910,215 reads written : 39,910,215 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: 00:07:00 39910215 reads; of these: 39910215 (100.00%) were unpaired; of these: 1743522 (4.37%) aligned 0 times 21512837 (53.90%) aligned exactly 1 time 16653856 (41.73%) aligned >1 times 95.63% overall alignment rate Time searching: 00:07:00 Overall time: 00:07:00 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] 24976774 / 38166693 = 0.6544 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 20:50:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.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 20:50:51: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:50:51: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:50:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.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 20:50:52: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:50:52: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:50:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.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 20:50:53: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:50:53: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:50:57: 1000000 INFO @ Fri, 05 Jul 2019 20:51:00: 1000000 INFO @ Fri, 05 Jul 2019 20:51:01: 1000000 INFO @ Fri, 05 Jul 2019 20:51:04: 2000000 INFO @ Fri, 05 Jul 2019 20:51:08: 2000000 INFO @ Fri, 05 Jul 2019 20:51:09: 2000000 INFO @ Fri, 05 Jul 2019 20:51:11: 3000000 INFO @ Fri, 05 Jul 2019 20:51:15: 3000000 INFO @ Fri, 05 Jul 2019 20:51:17: 3000000 INFO @ Fri, 05 Jul 2019 20:51:17: 4000000 INFO @ Fri, 05 Jul 2019 20:51:23: 4000000 INFO @ Fri, 05 Jul 2019 20:51:24: 5000000 INFO @ Fri, 05 Jul 2019 20:51:24: 4000000 INFO @ Fri, 05 Jul 2019 20:51:30: 6000000 INFO @ Fri, 05 Jul 2019 20:51:31: 5000000 INFO @ Fri, 05 Jul 2019 20:51:32: 5000000 INFO @ Fri, 05 Jul 2019 20:51:37: 7000000 INFO @ Fri, 05 Jul 2019 20:51:38: 6000000 INFO @ Fri, 05 Jul 2019 20:51:40: 6000000 INFO @ Fri, 05 Jul 2019 20:51:43: 8000000 INFO @ Fri, 05 Jul 2019 20:51:46: 7000000 INFO @ Fri, 05 Jul 2019 20:51:47: 7000000 INFO @ Fri, 05 Jul 2019 20:51:50: 9000000 INFO @ Fri, 05 Jul 2019 20:51:53: 8000000 INFO @ Fri, 05 Jul 2019 20:51:55: 8000000 INFO @ Fri, 05 Jul 2019 20:51:57: 10000000 INFO @ Fri, 05 Jul 2019 20:52:01: 9000000 INFO @ Fri, 05 Jul 2019 20:52:02: 9000000 INFO @ Fri, 05 Jul 2019 20:52:03: 11000000 INFO @ Fri, 05 Jul 2019 20:52:09: 10000000 INFO @ Fri, 05 Jul 2019 20:52:10: 12000000 INFO @ Fri, 05 Jul 2019 20:52:10: 10000000 INFO @ Fri, 05 Jul 2019 20:52:16: 13000000 INFO @ Fri, 05 Jul 2019 20:52:17: 11000000 INFO @ Fri, 05 Jul 2019 20:52:18: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:52:18: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:52:18: #1 total tags in treatment: 13189919 INFO @ Fri, 05 Jul 2019 20:52:18: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:52:18: #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 20:52:18: #1 tags after filtering in treatment: 13189919 INFO @ Fri, 05 Jul 2019 20:52:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:52:18: #1 finished! INFO @ Fri, 05 Jul 2019 20:52:18: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:52:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:52:18: 11000000 INFO @ Fri, 05 Jul 2019 20:52:19: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:52:19: 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 20:52:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.05_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/SRX2070412/SRX2070412.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:52:25: 12000000 INFO @ Fri, 05 Jul 2019 20:52:26: 12000000 INFO @ Fri, 05 Jul 2019 20:52:32: 13000000 INFO @ Fri, 05 Jul 2019 20:52:33: 13000000 INFO @ Fri, 05 Jul 2019 20:52:34: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:52:34: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:52:34: #1 total tags in treatment: 13189919 INFO @ Fri, 05 Jul 2019 20:52:34: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:52:34: #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 20:52:34: #1 tags after filtering in treatment: 13189919 INFO @ Fri, 05 Jul 2019 20:52:34: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:52:34: #1 finished! INFO @ Fri, 05 Jul 2019 20:52:34: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:52:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:52:35: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 20:52:35: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 20:52:35: #1 total tags in treatment: 13189919 INFO @ Fri, 05 Jul 2019 20:52:35: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:52:35: #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 20:52:35: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:52:35: 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 20:52:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.10_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/SRX2070412/SRX2070412.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:52:35: #1 tags after filtering in treatment: 13189919 INFO @ Fri, 05 Jul 2019 20:52:35: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:52:35: #1 finished! INFO @ Fri, 05 Jul 2019 20:52:35: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:52:35: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:52:36: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:52:36: 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 20:52:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.20_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/SRX2070412/SRX2070412.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2070412/SRX2070412.20_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。