Job ID = 2010193 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:38:04 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 ) 2019-07-05T12:38:04 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.24' from '172.19.7.43' 2019-07-05T12:38:04 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' (130.14.250.24) from '172.19.7.43' 2019-07-05T12:38:04 fasterq-dump.2.9.6 err: connection failed while opening file within cryptographic module - error with https open 'https://sra-download.ncbi.nlm.nih.gov/traces/sra53/SRR/006039/SRR6184418' 2019-07-05T12:38:04 fasterq-dump.2.9.6 err: cmn_iter.c cmn_iter_open_db().VDBManagerOpenDBRead( 'SRR6184418' ) -> RC(rcKrypto,rcFile,rcOpening,rcConnection,rcFailed) spots read : 18,505,737 reads read : 37,011,474 reads written : 18,505,737 reads 0-length : 18,505,737 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: 00:03:26 18505737 reads; of these: 18505737 (100.00%) were unpaired; of these: 1412861 (7.63%) aligned 0 times 15074018 (81.46%) aligned exactly 1 time 2018858 (10.91%) aligned >1 times 92.37% overall alignment rate Time searching: 00:03:26 Overall time: 00:03:26 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] 6342226 / 17092876 = 0.3710 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 21:54:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.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 21:54:23: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:54:23: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:54:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.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 21:54:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:54:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:54:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.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 21:54:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:54:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:54:30: 1000000 INFO @ Fri, 05 Jul 2019 21:54:30: 1000000 INFO @ Fri, 05 Jul 2019 21:54:32: 1000000 INFO @ Fri, 05 Jul 2019 21:54:36: 2000000 INFO @ Fri, 05 Jul 2019 21:54:37: 2000000 INFO @ Fri, 05 Jul 2019 21:54:39: 2000000 INFO @ Fri, 05 Jul 2019 21:54:42: 3000000 INFO @ Fri, 05 Jul 2019 21:54:43: 3000000 INFO @ Fri, 05 Jul 2019 21:54:46: 3000000 INFO @ Fri, 05 Jul 2019 21:54:48: 4000000 INFO @ Fri, 05 Jul 2019 21:54:49: 4000000 INFO @ Fri, 05 Jul 2019 21:54:53: 4000000 INFO @ Fri, 05 Jul 2019 21:54:55: 5000000 INFO @ Fri, 05 Jul 2019 21:54:56: 5000000 INFO @ Fri, 05 Jul 2019 21:55:00: 5000000 INFO @ Fri, 05 Jul 2019 21:55:01: 6000000 INFO @ Fri, 05 Jul 2019 21:55:02: 6000000 INFO @ Fri, 05 Jul 2019 21:55:07: 6000000 INFO @ Fri, 05 Jul 2019 21:55:07: 7000000 INFO @ Fri, 05 Jul 2019 21:55:08: 7000000 INFO @ Fri, 05 Jul 2019 21:55:13: 7000000 INFO @ Fri, 05 Jul 2019 21:55:14: 8000000 INFO @ Fri, 05 Jul 2019 21:55:14: 8000000 INFO @ Fri, 05 Jul 2019 21:55:20: 9000000 INFO @ Fri, 05 Jul 2019 21:55:20: 8000000 INFO @ Fri, 05 Jul 2019 21:55:21: 9000000 INFO @ Fri, 05 Jul 2019 21:55:26: 10000000 INFO @ Fri, 05 Jul 2019 21:55:27: 10000000 INFO @ Fri, 05 Jul 2019 21:55:27: 9000000 INFO @ Fri, 05 Jul 2019 21:55:31: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:55:31: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:55:31: #1 total tags in treatment: 10750650 INFO @ Fri, 05 Jul 2019 21:55:31: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:55:31: #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 21:55:31: #1 tags after filtering in treatment: 10750650 INFO @ Fri, 05 Jul 2019 21:55:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:55:31: #1 finished! INFO @ Fri, 05 Jul 2019 21:55:31: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:55:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:55:32: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:55:32: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:55:32: #1 total tags in treatment: 10750650 INFO @ Fri, 05 Jul 2019 21:55:32: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:55:32: #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 21:55:32: #1 tags after filtering in treatment: 10750650 INFO @ Fri, 05 Jul 2019 21:55:32: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:55:32: #1 finished! INFO @ Fri, 05 Jul 2019 21:55:32: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:55:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:55:32: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:55:32: 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 21:55:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.05_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/SRX3294566/SRX3294566.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:55:33: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:55:33: 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 21:55:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.10_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/SRX3294566/SRX3294566.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:55:34: 10000000 INFO @ Fri, 05 Jul 2019 21:55:39: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:55:39: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:55:39: #1 total tags in treatment: 10750650 INFO @ Fri, 05 Jul 2019 21:55:39: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:55:39: #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 21:55:39: #1 tags after filtering in treatment: 10750650 INFO @ Fri, 05 Jul 2019 21:55:39: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:55:39: #1 finished! INFO @ Fri, 05 Jul 2019 21:55:39: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:55:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:55:40: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:55:40: 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 21:55:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.20_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/SRX3294566/SRX3294566.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294566/SRX3294566.20_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。