Job ID = 2010616 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T14:35:45 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - mbedtls_ssl_handshake returned -76 ( NET - Reading information from the socket failed ) 2019-07-05T14:35:45 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.26' from '172.19.7.64' 2019-07-05T14:35:45 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - Failed to create TLS stream for 'sra-download.ncbi.nlm.nih.gov' (130.14.250.26) from '172.19.7.64' 2019-07-05T14:36:33 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 ) 2019-07-05T14:37:34 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 ) 2019-07-05T14:38:32 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 ) 2019-07-05T14:40:56 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 : 10,865,094 reads read : 21,730,188 reads written : 10,865,094 reads 0-length : 10,865,094 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: 00:01:06 10865094 reads; of these: 10865094 (100.00%) were unpaired; of these: 8226343 (75.71%) aligned 0 times 2395583 (22.05%) aligned exactly 1 time 243168 (2.24%) aligned >1 times 24.29% overall alignment rate Time searching: 00:01:06 Overall time: 00:01:06 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_rmdupse_core] 403653 / 2638751 = 0.1530 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 23:43:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.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 23:43:59: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:43:59: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:44:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.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 23:44:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:44:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:44:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.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 23:44:01: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:44:01: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:44:06: 1000000 INFO @ Fri, 05 Jul 2019 23:44:09: 1000000 INFO @ Fri, 05 Jul 2019 23:44:09: 1000000 INFO @ Fri, 05 Jul 2019 23:44:13: 2000000 INFO @ Fri, 05 Jul 2019 23:44:15: #1 tag size is determined as 35 bps INFO @ Fri, 05 Jul 2019 23:44:15: #1 tag size = 35 INFO @ Fri, 05 Jul 2019 23:44:15: #1 total tags in treatment: 2235098 INFO @ Fri, 05 Jul 2019 23:44:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:44:15: #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 23:44:15: #1 tags after filtering in treatment: 2235098 INFO @ Fri, 05 Jul 2019 23:44:15: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:44:15: #1 finished! INFO @ Fri, 05 Jul 2019 23:44:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:44:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:44:15: #2 number of paired peaks: 73 WARNING @ Fri, 05 Jul 2019 23:44:15: Too few paired peaks (73) 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 23:44:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.05_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/SRX3823267/SRX3823267.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:44:18: 2000000 INFO @ Fri, 05 Jul 2019 23:44:19: 2000000 INFO @ Fri, 05 Jul 2019 23:44:19: #1 tag size is determined as 35 bps INFO @ Fri, 05 Jul 2019 23:44:19: #1 tag size = 35 INFO @ Fri, 05 Jul 2019 23:44:19: #1 total tags in treatment: 2235098 INFO @ Fri, 05 Jul 2019 23:44:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:44:19: #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 23:44:19: #1 tags after filtering in treatment: 2235098 INFO @ Fri, 05 Jul 2019 23:44:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:44:19: #1 finished! INFO @ Fri, 05 Jul 2019 23:44:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:44:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:44:19: #2 number of paired peaks: 73 WARNING @ Fri, 05 Jul 2019 23:44:19: Too few paired peaks (73) 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 23:44:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.20_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/SRX3823267/SRX3823267.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:44:21: #1 tag size is determined as 35 bps INFO @ Fri, 05 Jul 2019 23:44:21: #1 tag size = 35 INFO @ Fri, 05 Jul 2019 23:44:21: #1 total tags in treatment: 2235098 INFO @ Fri, 05 Jul 2019 23:44:21: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:44:21: #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 23:44:21: #1 tags after filtering in treatment: 2235098 INFO @ Fri, 05 Jul 2019 23:44:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:44:21: #1 finished! INFO @ Fri, 05 Jul 2019 23:44:21: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:44:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:44:21: #2 number of paired peaks: 73 WARNING @ Fri, 05 Jul 2019 23:44:21: Too few paired peaks (73) 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 23:44:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.10_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/SRX3823267/SRX3823267.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823267/SRX3823267.10_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。