Job ID = 2009899 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:34:16 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 ) 2019-07-05T11:34:16 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.27' from '172.19.7.73' 2019-07-05T11:34:16 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' (130.14.250.27) from '172.19.7.73' 2019-07-05T11:34:16 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/sra43/SRR/004106/SRR4204589' 2019-07-05T11:34:29 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_acc_type( 'SRR4204589', 'NAME' ).VDBManagerOpenTableRead() -> RC(rcDB,rcMgr,rcOpening,rcTable,rcIncorrect) spots read : 26,044,188 reads read : 26,044,188 reads written : 26,044,188 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: 00:04:16 26044188 reads; of these: 26044188 (100.00%) were unpaired; of these: 2651333 (10.18%) aligned 0 times 17505488 (67.21%) aligned exactly 1 time 5887367 (22.61%) aligned >1 times 89.82% overall alignment rate Time searching: 00:04:16 Overall time: 00:04:16 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] 12665185 / 23392855 = 0.5414 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 20:52:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.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 20:52:06: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:52:06: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:52:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.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 20:52:06: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:52:06: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:52:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.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 20:52:07: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:52:07: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:52:14: 1000000 INFO @ Fri, 05 Jul 2019 20:52:15: 1000000 INFO @ Fri, 05 Jul 2019 20:52:16: 1000000 INFO @ Fri, 05 Jul 2019 20:52:21: 2000000 INFO @ Fri, 05 Jul 2019 20:52:24: 2000000 INFO @ Fri, 05 Jul 2019 20:52:25: 2000000 INFO @ Fri, 05 Jul 2019 20:52:28: 3000000 INFO @ Fri, 05 Jul 2019 20:52:32: 3000000 INFO @ Fri, 05 Jul 2019 20:52:35: 3000000 INFO @ Fri, 05 Jul 2019 20:52:35: 4000000 INFO @ Fri, 05 Jul 2019 20:52:39: 4000000 INFO @ Fri, 05 Jul 2019 20:52:42: 5000000 INFO @ Fri, 05 Jul 2019 20:52:44: 4000000 INFO @ Fri, 05 Jul 2019 20:52:47: 5000000 INFO @ Fri, 05 Jul 2019 20:52:49: 6000000 INFO @ Fri, 05 Jul 2019 20:52:53: 5000000 INFO @ Fri, 05 Jul 2019 20:52:54: 6000000 INFO @ Fri, 05 Jul 2019 20:52:55: 7000000 INFO @ Fri, 05 Jul 2019 20:53:01: 6000000 INFO @ Fri, 05 Jul 2019 20:53:02: 7000000 INFO @ Fri, 05 Jul 2019 20:53:02: 8000000 INFO @ Fri, 05 Jul 2019 20:53:09: 9000000 INFO @ Fri, 05 Jul 2019 20:53:09: 8000000 INFO @ Fri, 05 Jul 2019 20:53:10: 7000000 INFO @ Fri, 05 Jul 2019 20:53:16: 10000000 INFO @ Fri, 05 Jul 2019 20:53:17: 9000000 INFO @ Fri, 05 Jul 2019 20:53:19: 8000000 INFO @ Fri, 05 Jul 2019 20:53:21: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:53:21: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:53:21: #1 total tags in treatment: 10727670 INFO @ Fri, 05 Jul 2019 20:53:21: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:53:21: #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 20:53:21: #1 tags after filtering in treatment: 10727670 INFO @ Fri, 05 Jul 2019 20:53:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:53:21: #1 finished! INFO @ Fri, 05 Jul 2019 20:53:21: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:53:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:53:22: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:53:22: 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 20:53:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.10_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/SRX2148749/SRX2148749.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:53:25: 10000000 INFO @ Fri, 05 Jul 2019 20:53:28: 9000000 INFO @ Fri, 05 Jul 2019 20:53:30: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:53:30: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:53:30: #1 total tags in treatment: 10727670 INFO @ Fri, 05 Jul 2019 20:53:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:53:30: #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 20:53:30: #1 tags after filtering in treatment: 10727670 INFO @ Fri, 05 Jul 2019 20:53:30: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:53:30: #1 finished! INFO @ Fri, 05 Jul 2019 20:53:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:53:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:53:31: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:53:31: 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 20:53:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:53:37: 10000000 INFO @ Fri, 05 Jul 2019 20:53:43: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:53:43: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:53:43: #1 total tags in treatment: 10727670 INFO @ Fri, 05 Jul 2019 20:53:43: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:53:43: #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 20:53:43: #1 tags after filtering in treatment: 10727670 INFO @ Fri, 05 Jul 2019 20:53:43: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:53:43: #1 finished! INFO @ Fri, 05 Jul 2019 20:53:43: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:53:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:53:44: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:53:44: 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 20:53:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.05_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/SRX2148749/SRX2148749.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148749/SRX2148749.05_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。