Job ID = 2009896 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:34:07 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 ) 2019-07-05T11:34:16 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 ) 2019-07-05T11:34:16 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 : 20,555,207 reads read : 20,555,207 reads written : 20,555,207 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: 00:06:17 20555207 reads; of these: 20555207 (100.00%) were unpaired; of these: 755006 (3.67%) aligned 0 times 16616134 (80.84%) aligned exactly 1 time 3184067 (15.49%) aligned >1 times 96.33% overall alignment rate Time searching: 00:06:17 Overall time: 00:06:17 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] 9222400 / 19800201 = 0.4658 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 20:51:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.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 20:51:53: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:51:53: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:51:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.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 20:51:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:51:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:51:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.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 20:51:55: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:51:55: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:52:00: 1000000 INFO @ Fri, 05 Jul 2019 20:52:02: 1000000 INFO @ Fri, 05 Jul 2019 20:52:03: 1000000 INFO @ Fri, 05 Jul 2019 20:52:07: 2000000 INFO @ Fri, 05 Jul 2019 20:52:09: 2000000 INFO @ Fri, 05 Jul 2019 20:52:11: 2000000 INFO @ Fri, 05 Jul 2019 20:52:13: 3000000 INFO @ Fri, 05 Jul 2019 20:52:17: 3000000 INFO @ Fri, 05 Jul 2019 20:52:18: 3000000 INFO @ Fri, 05 Jul 2019 20:52:20: 4000000 INFO @ Fri, 05 Jul 2019 20:52:24: 4000000 INFO @ Fri, 05 Jul 2019 20:52:25: 4000000 INFO @ Fri, 05 Jul 2019 20:52:27: 5000000 INFO @ Fri, 05 Jul 2019 20:52:31: 5000000 INFO @ Fri, 05 Jul 2019 20:52:33: 6000000 INFO @ Fri, 05 Jul 2019 20:52:33: 5000000 INFO @ Fri, 05 Jul 2019 20:52:39: 6000000 INFO @ Fri, 05 Jul 2019 20:52:40: 7000000 INFO @ Fri, 05 Jul 2019 20:52:41: 6000000 INFO @ Fri, 05 Jul 2019 20:52:46: 7000000 INFO @ Fri, 05 Jul 2019 20:52:47: 8000000 INFO @ Fri, 05 Jul 2019 20:52:48: 7000000 INFO @ Fri, 05 Jul 2019 20:52:53: 9000000 INFO @ Fri, 05 Jul 2019 20:52:53: 8000000 INFO @ Fri, 05 Jul 2019 20:52:55: 8000000 INFO @ Fri, 05 Jul 2019 20:53:00: 10000000 INFO @ Fri, 05 Jul 2019 20:53:01: 9000000 INFO @ Fri, 05 Jul 2019 20:53:02: 9000000 INFO @ Fri, 05 Jul 2019 20:53:04: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:53:04: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:53:04: #1 total tags in treatment: 10577801 INFO @ Fri, 05 Jul 2019 20:53:04: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:53:04: #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 20:53:04: #1 tags after filtering in treatment: 10577801 INFO @ Fri, 05 Jul 2019 20:53:04: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:53:04: #1 finished! INFO @ Fri, 05 Jul 2019 20:53:04: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:53:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:53:05: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:53:05: 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 20:53:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.05_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/SRX2148746/SRX2148746.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:53:08: 10000000 INFO @ Fri, 05 Jul 2019 20:53:10: 10000000 INFO @ Fri, 05 Jul 2019 20:53:12: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:53:12: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:53:12: #1 total tags in treatment: 10577801 INFO @ Fri, 05 Jul 2019 20:53:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:53:12: #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 20:53:12: #1 tags after filtering in treatment: 10577801 INFO @ Fri, 05 Jul 2019 20:53:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:53:12: #1 finished! INFO @ Fri, 05 Jul 2019 20:53:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:53:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:53:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:53:13: 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 20:53:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.10_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/SRX2148746/SRX2148746.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:53:14: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:53:14: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:53:14: #1 total tags in treatment: 10577801 INFO @ Fri, 05 Jul 2019 20:53:14: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:53:14: #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 20:53:14: #1 tags after filtering in treatment: 10577801 INFO @ Fri, 05 Jul 2019 20:53:14: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:53:14: #1 finished! INFO @ Fri, 05 Jul 2019 20:53:14: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:53:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:53:15: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:53:15: 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 20:53:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.20_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/SRX2148746/SRX2148746.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148746/SRX2148746.20_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。