Job ID = 2010333 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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 ) 2019-07-05T13:05:49 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 ) 2019-07-05T13:06:57 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 ) 2019-07-05T13:15:55 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 : 27,305,283 reads read : 27,305,283 reads written : 27,305,283 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: 00:09:09 27305283 reads; of these: 27305283 (100.00%) were unpaired; of these: 5262727 (19.27%) aligned 0 times 18400031 (67.39%) aligned exactly 1 time 3642525 (13.34%) aligned >1 times 80.73% overall alignment rate Time searching: 00:09:09 Overall time: 00:09:09 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 12 files... [bam_rmdupse_core] 10597519 / 22042556 = 0.4808 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 22:54:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.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 22:54:04: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:54:04: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:54:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.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 22:54:05: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:54:05: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:54:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.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 22:54:06: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:54:06: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:54:13: 1000000 INFO @ Fri, 05 Jul 2019 22:54:17: 1000000 INFO @ Fri, 05 Jul 2019 22:54:17: 1000000 INFO @ Fri, 05 Jul 2019 22:54:22: 2000000 INFO @ Fri, 05 Jul 2019 22:54:29: 2000000 INFO @ Fri, 05 Jul 2019 22:54:29: 2000000 INFO @ Fri, 05 Jul 2019 22:54:31: 3000000 INFO @ Fri, 05 Jul 2019 22:54:39: 3000000 INFO @ Fri, 05 Jul 2019 22:54:41: 4000000 INFO @ Fri, 05 Jul 2019 22:54:41: 3000000 INFO @ Fri, 05 Jul 2019 22:54:50: 5000000 INFO @ Fri, 05 Jul 2019 22:54:50: 4000000 INFO @ Fri, 05 Jul 2019 22:54:53: 4000000 INFO @ Fri, 05 Jul 2019 22:54:59: 6000000 INFO @ Fri, 05 Jul 2019 22:55:01: 5000000 INFO @ Fri, 05 Jul 2019 22:55:04: 5000000 INFO @ Fri, 05 Jul 2019 22:55:07: 7000000 INFO @ Fri, 05 Jul 2019 22:55:12: 6000000 INFO @ Fri, 05 Jul 2019 22:55:16: 8000000 INFO @ Fri, 05 Jul 2019 22:55:16: 6000000 INFO @ Fri, 05 Jul 2019 22:55:22: 7000000 INFO @ Fri, 05 Jul 2019 22:55:24: 9000000 INFO @ Fri, 05 Jul 2019 22:55:27: 7000000 INFO @ Fri, 05 Jul 2019 22:55:32: 10000000 INFO @ Fri, 05 Jul 2019 22:55:33: 8000000 INFO @ Fri, 05 Jul 2019 22:55:38: 8000000 INFO @ Fri, 05 Jul 2019 22:55:41: 11000000 INFO @ Fri, 05 Jul 2019 22:55:43: 9000000 INFO @ Fri, 05 Jul 2019 22:55:44: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 22:55:44: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 22:55:44: #1 total tags in treatment: 11445037 INFO @ Fri, 05 Jul 2019 22:55:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:55:44: #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 22:55:45: #1 tags after filtering in treatment: 11445037 INFO @ Fri, 05 Jul 2019 22:55:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:55:45: #1 finished! INFO @ Fri, 05 Jul 2019 22:55:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:55:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:55:46: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:55:46: 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 22:55:46: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 22:55:50: 9000000 INFO @ Fri, 05 Jul 2019 22:55:54: 10000000 INFO @ Fri, 05 Jul 2019 22:56:01: 10000000 INFO @ Fri, 05 Jul 2019 22:56:05: 11000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.05_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/SRX363333/SRX363333.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:56:10: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 22:56:10: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 22:56:10: #1 total tags in treatment: 11445037 INFO @ Fri, 05 Jul 2019 22:56:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:56:10: #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 22:56:10: #1 tags after filtering in treatment: 11445037 INFO @ Fri, 05 Jul 2019 22:56:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:56:10: #1 finished! INFO @ Fri, 05 Jul 2019 22:56:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:56:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:56:11: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:56:11: 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 22:56:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.20_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/SRX363333/SRX363333.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 22:56:14: 11000000 INFO @ Fri, 05 Jul 2019 22:56:19: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 22:56:19: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 22:56:19: #1 total tags in treatment: 11445037 INFO @ Fri, 05 Jul 2019 22:56:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:56:19: #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 22:56:19: #1 tags after filtering in treatment: 11445037 INFO @ Fri, 05 Jul 2019 22:56:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:56:19: #1 finished! INFO @ Fri, 05 Jul 2019 22:56:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:56:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:56:20: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:56:20: 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 22:56:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.10_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/SRX363333/SRX363333.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363333/SRX363333.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。