Job ID = 2010158 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:33:35 fasterq-dump.2.9.6 sys: error unknown 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 ) 2019-07-05T12:47:14 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 : 18,657,407 reads read : 18,657,407 reads written : 18,657,407 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: 00:06:46 18657407 reads; of these: 18657407 (100.00%) were unpaired; of these: 415354 (2.23%) aligned 0 times 15156824 (81.24%) aligned exactly 1 time 3085229 (16.54%) aligned >1 times 97.77% overall alignment rate Time searching: 00:06:46 Overall time: 00:06:46 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_sort_core] merging from 8 files... [bam_rmdupse_core] 7222505 / 18242053 = 0.3959 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 21:58:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.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 21:58:09: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:58:09: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:58:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.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 21:58:10: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:58:10: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:58:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.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 21:58:11: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:58:11: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:58:16: 1000000 INFO @ Fri, 05 Jul 2019 21:58:19: 1000000 INFO @ Fri, 05 Jul 2019 21:58:20: 1000000 INFO @ Fri, 05 Jul 2019 21:58:23: 2000000 INFO @ Fri, 05 Jul 2019 21:58:27: 2000000 INFO @ Fri, 05 Jul 2019 21:58:28: 2000000 INFO @ Fri, 05 Jul 2019 21:58:30: 3000000 INFO @ Fri, 05 Jul 2019 21:58:36: 3000000 INFO @ Fri, 05 Jul 2019 21:58:37: 4000000 INFO @ Fri, 05 Jul 2019 21:58:37: 3000000 INFO @ Fri, 05 Jul 2019 21:58:43: 4000000 INFO @ Fri, 05 Jul 2019 21:58:44: 5000000 INFO @ Fri, 05 Jul 2019 21:58:45: 4000000 INFO @ Fri, 05 Jul 2019 21:58:51: 6000000 INFO @ Fri, 05 Jul 2019 21:58:51: 5000000 INFO @ Fri, 05 Jul 2019 21:58:53: 5000000 INFO @ Fri, 05 Jul 2019 21:58:58: 7000000 INFO @ Fri, 05 Jul 2019 21:58:59: 6000000 INFO @ Fri, 05 Jul 2019 21:59:01: 6000000 INFO @ Fri, 05 Jul 2019 21:59:04: 8000000 INFO @ Fri, 05 Jul 2019 21:59:07: 7000000 INFO @ Fri, 05 Jul 2019 21:59:09: 7000000 INFO @ Fri, 05 Jul 2019 21:59:12: 9000000 INFO @ Fri, 05 Jul 2019 21:59:15: 8000000 INFO @ Fri, 05 Jul 2019 21:59:17: 8000000 INFO @ Fri, 05 Jul 2019 21:59:19: 10000000 INFO @ Fri, 05 Jul 2019 21:59:23: 9000000 INFO @ Fri, 05 Jul 2019 21:59:26: 9000000 INFO @ Fri, 05 Jul 2019 21:59:27: 11000000 INFO @ Fri, 05 Jul 2019 21:59:27: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:59:27: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:59:27: #1 total tags in treatment: 11019548 INFO @ Fri, 05 Jul 2019 21:59:27: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:59:27: #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 21:59:27: #1 tags after filtering in treatment: 11019548 INFO @ Fri, 05 Jul 2019 21:59:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:59:27: #1 finished! INFO @ Fri, 05 Jul 2019 21:59:27: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:59:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:59:28: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:59:28: 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 21:59:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.05_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/SRX2894827/SRX2894827.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:59:32: 10000000 INFO @ Fri, 05 Jul 2019 21:59:35: 10000000 INFO @ Fri, 05 Jul 2019 21:59:40: 11000000 INFO @ Fri, 05 Jul 2019 21:59:40: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:59:40: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:59:40: #1 total tags in treatment: 11019548 INFO @ Fri, 05 Jul 2019 21:59:40: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:59:40: #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 21:59:41: #1 tags after filtering in treatment: 11019548 INFO @ Fri, 05 Jul 2019 21:59:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:59:41: #1 finished! INFO @ Fri, 05 Jul 2019 21:59:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:59:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:59:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:59:41: 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 21:59:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.10_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/SRX2894827/SRX2894827.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:59:44: 11000000 INFO @ Fri, 05 Jul 2019 21:59:44: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:59:44: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:59:44: #1 total tags in treatment: 11019548 INFO @ Fri, 05 Jul 2019 21:59:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:59:44: #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 21:59:45: #1 tags after filtering in treatment: 11019548 INFO @ Fri, 05 Jul 2019 21:59:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:59:45: #1 finished! INFO @ Fri, 05 Jul 2019 21:59:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:59:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:59:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:59:45: 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 21:59:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.20_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/SRX2894827/SRX2894827.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2894827/SRX2894827.20_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。