Job ID = 2010205 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:43:02 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 ) 2019-07-05T12:43:39 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 ) 2019-07-05T12:43:56 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 ) 2019-07-05T12:44:17 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 ) 2019-07-05T12:44:17 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.26' from '172.19.7.57' 2019-07-05T12:44:17 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 '172.19.7.57' 2019-07-05T12:44:52 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 : 9,142,913 reads read : 18,285,826 reads written : 9,142,913 reads 0-length : 9,142,913 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: 00:01:46 9142913 reads; of these: 9142913 (100.00%) were unpaired; of these: 649721 (7.11%) aligned 0 times 7433689 (81.31%) aligned exactly 1 time 1059503 (11.59%) aligned >1 times 92.89% overall alignment rate Time searching: 00:01:46 Overall time: 00:01:46 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] 2459008 / 8493192 = 0.2895 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 21:51:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.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 21:51:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:51:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:51:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.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 21:51:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:51:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:51:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.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 21:51:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:51:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:52:03: 1000000 INFO @ Fri, 05 Jul 2019 21:52:05: 1000000 INFO @ Fri, 05 Jul 2019 21:52:07: 1000000 INFO @ Fri, 05 Jul 2019 21:52:10: 2000000 INFO @ Fri, 05 Jul 2019 21:52:12: 2000000 INFO @ Fri, 05 Jul 2019 21:52:16: 2000000 INFO @ Fri, 05 Jul 2019 21:52:17: 3000000 INFO @ Fri, 05 Jul 2019 21:52:19: 3000000 INFO @ Fri, 05 Jul 2019 21:52:24: 4000000 INFO @ Fri, 05 Jul 2019 21:52:25: 3000000 INFO @ Fri, 05 Jul 2019 21:52:26: 4000000 INFO @ Fri, 05 Jul 2019 21:52:31: 5000000 INFO @ Fri, 05 Jul 2019 21:52:33: 5000000 INFO @ Fri, 05 Jul 2019 21:52:34: 4000000 INFO @ Fri, 05 Jul 2019 21:52:38: 6000000 INFO @ Fri, 05 Jul 2019 21:52:38: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:52:38: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:52:38: #1 total tags in treatment: 6034184 INFO @ Fri, 05 Jul 2019 21:52:38: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:52:38: #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 21:52:38: #1 tags after filtering in treatment: 6034184 INFO @ Fri, 05 Jul 2019 21:52:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:52:38: #1 finished! INFO @ Fri, 05 Jul 2019 21:52:38: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:52:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:52:39: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:52:39: 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 21:52:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.05_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/SRX3294577/SRX3294577.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:52:40: 6000000 INFO @ Fri, 05 Jul 2019 21:52:40: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:52:40: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:52:40: #1 total tags in treatment: 6034184 INFO @ Fri, 05 Jul 2019 21:52:40: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:52:40: #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 21:52:41: #1 tags after filtering in treatment: 6034184 INFO @ Fri, 05 Jul 2019 21:52:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:52:41: #1 finished! INFO @ Fri, 05 Jul 2019 21:52:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:52:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:52:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:52:41: 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 21:52:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.20_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/SRX3294577/SRX3294577.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:52:43: 5000000 INFO @ Fri, 05 Jul 2019 21:52:51: 6000000 INFO @ Fri, 05 Jul 2019 21:52:51: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:52:51: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:52:51: #1 total tags in treatment: 6034184 INFO @ Fri, 05 Jul 2019 21:52:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:52:51: #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 21:52:51: #1 tags after filtering in treatment: 6034184 INFO @ Fri, 05 Jul 2019 21:52:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:52:51: #1 finished! INFO @ Fri, 05 Jul 2019 21:52:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:52:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:52:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:52:52: 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 21:52:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.10_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/SRX3294577/SRX3294577.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294577/SRX3294577.10_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。