Job ID = 2009881 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:24:33 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 ) 2019-07-05T11:24:33 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 : 11,209,591 reads read : 11,209,591 reads written : 11,209,591 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: 00:01:57 11209591 reads; of these: 11209591 (100.00%) were unpaired; of these: 342056 (3.05%) aligned 0 times 9322099 (83.16%) aligned exactly 1 time 1545436 (13.79%) aligned >1 times 96.95% overall alignment rate Time searching: 00:01:59 Overall time: 00:01:59 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] 2965943 / 10867535 = 0.2729 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 20:32:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.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 20:32:01: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:32:01: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:32:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.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 20:32:02: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:32:02: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:32:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.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 20:32:03: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:32:03: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:32:08: 1000000 INFO @ Fri, 05 Jul 2019 20:32:09: 1000000 INFO @ Fri, 05 Jul 2019 20:32:10: 1000000 INFO @ Fri, 05 Jul 2019 20:32:15: 2000000 INFO @ Fri, 05 Jul 2019 20:32:16: 2000000 INFO @ Fri, 05 Jul 2019 20:32:18: 2000000 INFO @ Fri, 05 Jul 2019 20:32:21: 3000000 INFO @ Fri, 05 Jul 2019 20:32:22: 3000000 INFO @ Fri, 05 Jul 2019 20:32:25: 3000000 INFO @ Fri, 05 Jul 2019 20:32:28: 4000000 INFO @ Fri, 05 Jul 2019 20:32:29: 4000000 INFO @ Fri, 05 Jul 2019 20:32:32: 4000000 INFO @ Fri, 05 Jul 2019 20:32:35: 5000000 INFO @ Fri, 05 Jul 2019 20:32:36: 5000000 INFO @ Fri, 05 Jul 2019 20:32:39: 5000000 INFO @ Fri, 05 Jul 2019 20:32:42: 6000000 INFO @ Fri, 05 Jul 2019 20:32:43: 6000000 INFO @ Fri, 05 Jul 2019 20:32:46: 6000000 INFO @ Fri, 05 Jul 2019 20:32:48: 7000000 INFO @ Fri, 05 Jul 2019 20:32:49: 7000000 INFO @ Fri, 05 Jul 2019 20:32:53: 7000000 INFO @ Fri, 05 Jul 2019 20:32:54: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:32:54: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:32:54: #1 total tags in treatment: 7901592 INFO @ Fri, 05 Jul 2019 20:32:54: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:32:54: #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 20:32:54: #1 tags after filtering in treatment: 7901592 INFO @ Fri, 05 Jul 2019 20:32:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:32:54: #1 finished! INFO @ Fri, 05 Jul 2019 20:32:54: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:32:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:32:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:32:55: 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 20:32:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.05_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/SRX2148732/SRX2148732.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:32:55: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:32:55: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:32:55: #1 total tags in treatment: 7901592 INFO @ Fri, 05 Jul 2019 20:32:55: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:32:55: #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 20:32:55: #1 tags after filtering in treatment: 7901592 INFO @ Fri, 05 Jul 2019 20:32:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:32:55: #1 finished! INFO @ Fri, 05 Jul 2019 20:32:55: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:32:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:32:56: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:32:56: 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 20:32:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.10_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/SRX2148732/SRX2148732.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:32:59: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:32:59: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:32:59: #1 total tags in treatment: 7901592 INFO @ Fri, 05 Jul 2019 20:32:59: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:32:59: #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 20:33:00: #1 tags after filtering in treatment: 7901592 INFO @ Fri, 05 Jul 2019 20:33:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:33:00: #1 finished! INFO @ Fri, 05 Jul 2019 20:33:00: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:33:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:33:00: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:33:00: 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 20:33:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.20_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/SRX2148732/SRX2148732.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148732/SRX2148732.20_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。