Job ID = 2009897 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/SRR4204587' 2019-07-05T11:34:29 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_acc_type( 'SRR4204587', 'NAME' ).VDBManagerOpenTableRead() -> RC(rcDB,rcMgr,rcOpening,rcTable,rcIncorrect) spots read : 20,617,339 reads read : 20,617,339 reads written : 20,617,339 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: 00:03:19 20617339 reads; of these: 20617339 (100.00%) were unpaired; of these: 1611604 (7.82%) aligned 0 times 14726963 (71.43%) aligned exactly 1 time 4278772 (20.75%) aligned >1 times 92.18% overall alignment rate Time searching: 00:03:19 Overall time: 00:03:19 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] 10207172 / 19005735 = 0.5371 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 20:49:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.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 20:49:32: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:49:32: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:49:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.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 20:49:33: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:49:33: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:49:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.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 20:49:34: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:49:34: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:49:42: 1000000 INFO @ Fri, 05 Jul 2019 20:49:43: 1000000 INFO @ Fri, 05 Jul 2019 20:49:44: 1000000 INFO @ Fri, 05 Jul 2019 20:49:52: 2000000 INFO @ Fri, 05 Jul 2019 20:49:53: 2000000 INFO @ Fri, 05 Jul 2019 20:49:53: 2000000 INFO @ Fri, 05 Jul 2019 20:50:01: 3000000 INFO @ Fri, 05 Jul 2019 20:50:02: 3000000 INFO @ Fri, 05 Jul 2019 20:50:02: 3000000 INFO @ Fri, 05 Jul 2019 20:50:11: 4000000 INFO @ Fri, 05 Jul 2019 20:50:11: 4000000 INFO @ Fri, 05 Jul 2019 20:50:12: 4000000 INFO @ Fri, 05 Jul 2019 20:50:20: 5000000 INFO @ Fri, 05 Jul 2019 20:50:20: 5000000 INFO @ Fri, 05 Jul 2019 20:50:21: 5000000 INFO @ Fri, 05 Jul 2019 20:50:28: 6000000 INFO @ Fri, 05 Jul 2019 20:50:29: 6000000 INFO @ Fri, 05 Jul 2019 20:50:30: 6000000 INFO @ Fri, 05 Jul 2019 20:50:37: 7000000 INFO @ Fri, 05 Jul 2019 20:50:38: 7000000 INFO @ Fri, 05 Jul 2019 20:50:39: 7000000 INFO @ Fri, 05 Jul 2019 20:50:46: 8000000 INFO @ Fri, 05 Jul 2019 20:50:47: 8000000 INFO @ Fri, 05 Jul 2019 20:50:48: 8000000 INFO @ Fri, 05 Jul 2019 20:50:52: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:50:52: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:50:52: #1 total tags in treatment: 8798563 INFO @ Fri, 05 Jul 2019 20:50:52: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:50:52: #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 20:50:52: #1 tags after filtering in treatment: 8798563 INFO @ Fri, 05 Jul 2019 20:50:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:50:52: #1 finished! INFO @ Fri, 05 Jul 2019 20:50:52: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:50:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:50:53: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:50:53: 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 20:50:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.20_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 20:50:54: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:50:54: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:50:54: #1 total tags in treatment: 8798563 INFO @ Fri, 05 Jul 2019 20:50:54: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:50:54: #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 20:50:54: #1 tags after filtering in treatment: 8798563 INFO @ Fri, 05 Jul 2019 20:50:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:50:54: #1 finished! INFO @ Fri, 05 Jul 2019 20:50:54: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:50:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:50:55: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:50:55: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:50:55: #1 total tags in treatment: 8798563 INFO @ Fri, 05 Jul 2019 20:50:55: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:50:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:50:55: #1 tags after filtering in treatment: 8798563 INFO @ Fri, 05 Jul 2019 20:50:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:50:55: #1 finished! INFO @ Fri, 05 Jul 2019 20:50:55: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:50:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:50:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:50:55: 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 20:50:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.05_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/SRX2148747/SRX2148747.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:50:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:50:55: 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 20:50:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.10_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/SRX2148747/SRX2148747.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148747/SRX2148747.10_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。