Job ID = 2010295 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T13:03:09 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 ) 2019-07-05T13:03:15 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 ) 2019-07-05T13:04:02 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 ) 2019-07-05T13:04:34 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 ) 2019-07-05T13:05:49 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 ) 2019-07-05T13:15:55 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 : 56,863,859 reads read : 56,863,859 reads written : 56,863,859 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: 00:05:43 56863859 reads; of these: 56863859 (100.00%) were unpaired; of these: 28183733 (49.56%) aligned 0 times 22213080 (39.06%) aligned exactly 1 time 6467046 (11.37%) aligned >1 times 50.44% overall alignment rate Time searching: 00:05:43 Overall time: 00:05:43 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_rmdupse_core] 16879169 / 28680126 = 0.5885 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 22:41:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.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 22:41:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:41:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:41:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.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 22:41:55: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:41:55: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:41:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.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 22:41:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:41:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:42:01: 1000000 INFO @ Fri, 05 Jul 2019 22:42:04: 1000000 INFO @ Fri, 05 Jul 2019 22:42:05: 1000000 INFO @ Fri, 05 Jul 2019 22:42:09: 2000000 INFO @ Fri, 05 Jul 2019 22:42:11: 2000000 INFO @ Fri, 05 Jul 2019 22:42:14: 2000000 INFO @ Fri, 05 Jul 2019 22:42:16: 3000000 INFO @ Fri, 05 Jul 2019 22:42:18: 3000000 INFO @ Fri, 05 Jul 2019 22:42:23: 4000000 INFO @ Fri, 05 Jul 2019 22:42:24: 3000000 INFO @ Fri, 05 Jul 2019 22:42:26: 4000000 INFO @ Fri, 05 Jul 2019 22:42:31: 5000000 INFO @ Fri, 05 Jul 2019 22:42:33: 4000000 INFO @ Fri, 05 Jul 2019 22:42:33: 5000000 INFO @ Fri, 05 Jul 2019 22:42:38: 6000000 INFO @ Fri, 05 Jul 2019 22:42:41: 6000000 INFO @ Fri, 05 Jul 2019 22:42:42: 5000000 INFO @ Fri, 05 Jul 2019 22:42:46: 7000000 INFO @ Fri, 05 Jul 2019 22:42:48: 7000000 INFO @ Fri, 05 Jul 2019 22:42:51: 6000000 INFO @ Fri, 05 Jul 2019 22:42:53: 8000000 INFO @ Fri, 05 Jul 2019 22:42:56: 8000000 INFO @ Fri, 05 Jul 2019 22:43:01: 9000000 INFO @ Fri, 05 Jul 2019 22:43:01: 7000000 INFO @ Fri, 05 Jul 2019 22:43:03: 9000000 INFO @ Fri, 05 Jul 2019 22:43:08: 10000000 INFO @ Fri, 05 Jul 2019 22:43:10: 8000000 INFO @ Fri, 05 Jul 2019 22:43:10: 10000000 INFO @ Fri, 05 Jul 2019 22:43:15: 11000000 INFO @ Fri, 05 Jul 2019 22:43:18: 11000000 INFO @ Fri, 05 Jul 2019 22:43:19: 9000000 INFO @ Fri, 05 Jul 2019 22:43:21: #1 tag size is determined as 40 bps INFO @ Fri, 05 Jul 2019 22:43:21: #1 tag size = 40 INFO @ Fri, 05 Jul 2019 22:43:21: #1 total tags in treatment: 11800957 INFO @ Fri, 05 Jul 2019 22:43:21: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:43:21: #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 22:43:22: #1 tags after filtering in treatment: 11800957 INFO @ Fri, 05 Jul 2019 22:43:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:43:22: #1 finished! INFO @ Fri, 05 Jul 2019 22:43:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:43:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:43:22: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:43:22: 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 22:43:22: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 22:43:23: #1 tag size is determined as 40 bps INFO @ Fri, 05 Jul 2019 22:43:23: #1 tag size = 40 INFO @ Fri, 05 Jul 2019 22:43:23: #1 total tags in treatment: 11800957 INFO @ Fri, 05 Jul 2019 22:43:23: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:43:23: #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 22:43:24: #1 tags after filtering in treatment: 11800957 INFO @ Fri, 05 Jul 2019 22:43:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:43:24: #1 finished! INFO @ Fri, 05 Jul 2019 22:43:24: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:43:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:43:25: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:43:25: 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 22:43:25: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 22:43:28: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.05_model.r’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:43:37: 11000000 INFO @ Fri, 05 Jul 2019 22:43:44: #1 tag size is determined as 40 bps INFO @ Fri, 05 Jul 2019 22:43:44: #1 tag size = 40 INFO @ Fri, 05 Jul 2019 22:43:44: #1 total tags in treatment: 11800957 INFO @ Fri, 05 Jul 2019 22:43:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:43:44: #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 22:43:44: #1 tags after filtering in treatment: 11800957 INFO @ Fri, 05 Jul 2019 22:43:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:43:44: #1 finished! INFO @ Fri, 05 Jul 2019 22:43:44: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:43:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:43:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:43:45: 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 22:43:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.10_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/sacCer3/SRX332101/SRX332101.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX332101/SRX332101.10_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。