Job ID = 4289605 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-12-10T05:56:21 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 ) 2019-12-10T05:58:45 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 ) 2019-12-10T06:00:29 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 ) spots read : 36,916,010 reads read : 73,832,020 reads written : 36,916,010 reads 0-length : 36,916,010 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: 00:06:18 36916010 reads; of these: 36916010 (100.00%) were unpaired; of these: 1425561 (3.86%) aligned 0 times 29089152 (78.80%) aligned exactly 1 time 6401297 (17.34%) aligned >1 times 96.14% overall alignment rate Time searching: 00:06:18 Overall time: 00:06:18 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 16 files... [bam_rmdupse_core] 20829012 / 35490449 = 0.5869 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 15:19:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.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 @ Tue, 10 Dec 2019 15:19:04: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:19:04: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:19:11: 1000000 INFO @ Tue, 10 Dec 2019 15:19:19: 2000000 INFO @ Tue, 10 Dec 2019 15:19:26: 3000000 INFO @ Tue, 10 Dec 2019 15:19:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.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 @ Tue, 10 Dec 2019 15:19:34: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:19:34: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:19:34: 4000000 INFO @ Tue, 10 Dec 2019 15:19:42: 5000000 INFO @ Tue, 10 Dec 2019 15:19:42: 1000000 INFO @ Tue, 10 Dec 2019 15:19:51: 2000000 INFO @ Tue, 10 Dec 2019 15:19:51: 6000000 INFO @ Tue, 10 Dec 2019 15:19:59: 3000000 INFO @ Tue, 10 Dec 2019 15:19:59: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:20:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.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 @ Tue, 10 Dec 2019 15:20:04: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:20:04: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:20:07: 4000000 INFO @ Tue, 10 Dec 2019 15:20:08: 8000000 INFO @ Tue, 10 Dec 2019 15:20:11: 1000000 INFO @ Tue, 10 Dec 2019 15:20:15: 5000000 INFO @ Tue, 10 Dec 2019 15:20:17: 9000000 INFO @ Tue, 10 Dec 2019 15:20:18: 2000000 INFO @ Tue, 10 Dec 2019 15:20:24: 6000000 INFO @ Tue, 10 Dec 2019 15:20:24: 3000000 INFO @ Tue, 10 Dec 2019 15:20:26: 10000000 INFO @ Tue, 10 Dec 2019 15:20:31: 4000000 INFO @ Tue, 10 Dec 2019 15:20:33: 7000000 INFO @ Tue, 10 Dec 2019 15:20:35: 11000000 INFO @ Tue, 10 Dec 2019 15:20:38: 5000000 INFO @ Tue, 10 Dec 2019 15:20:42: 8000000 INFO @ Tue, 10 Dec 2019 15:20:44: 12000000 INFO @ Tue, 10 Dec 2019 15:20:44: 6000000 INFO @ Tue, 10 Dec 2019 15:20:51: 9000000 INFO @ Tue, 10 Dec 2019 15:20:51: 7000000 INFO @ Tue, 10 Dec 2019 15:20:53: 13000000 INFO @ Tue, 10 Dec 2019 15:20:58: 8000000 INFO @ Tue, 10 Dec 2019 15:21:00: 10000000 INFO @ Tue, 10 Dec 2019 15:21:02: 14000000 INFO @ Tue, 10 Dec 2019 15:21:04: 9000000 INFO @ Tue, 10 Dec 2019 15:21:08: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:21:08: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:21:08: #1 total tags in treatment: 14661437 INFO @ Tue, 10 Dec 2019 15:21:08: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:21:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 15:21:09: #1 tags after filtering in treatment: 14661437 INFO @ Tue, 10 Dec 2019 15:21:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:21:09: #1 finished! INFO @ Tue, 10 Dec 2019 15:21:09: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:21:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:21:09: 11000000 INFO @ Tue, 10 Dec 2019 15:21:10: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:21:10: 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 @ Tue, 10 Dec 2019 15:21:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.05_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/SRX7106976/SRX7106976.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:21:11: 10000000 INFO @ Tue, 10 Dec 2019 15:21:17: 12000000 INFO @ Tue, 10 Dec 2019 15:21:18: 11000000 INFO @ Tue, 10 Dec 2019 15:21:24: 12000000 INFO @ Tue, 10 Dec 2019 15:21:24: 13000000 INFO @ Tue, 10 Dec 2019 15:21:31: 13000000 INFO @ Tue, 10 Dec 2019 15:21:32: 14000000 INFO @ Tue, 10 Dec 2019 15:21:37: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:21:37: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:21:37: #1 total tags in treatment: 14661437 INFO @ Tue, 10 Dec 2019 15:21:37: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:21:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 15:21:37: #1 tags after filtering in treatment: 14661437 INFO @ Tue, 10 Dec 2019 15:21:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:21:37: #1 finished! INFO @ Tue, 10 Dec 2019 15:21:37: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:21:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:21:37: 14000000 INFO @ Tue, 10 Dec 2019 15:21:38: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:21:38: 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 @ Tue, 10 Dec 2019 15:21:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.10_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/SRX7106976/SRX7106976.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:21:42: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:21:42: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:21:42: #1 total tags in treatment: 14661437 INFO @ Tue, 10 Dec 2019 15:21:42: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:21:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 15:21:42: #1 tags after filtering in treatment: 14661437 INFO @ Tue, 10 Dec 2019 15:21:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:21:42: #1 finished! INFO @ Tue, 10 Dec 2019 15:21:42: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:21:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:21:43: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:21:43: 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 @ Tue, 10 Dec 2019 15:21:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.20_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/SRX7106976/SRX7106976.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106976/SRX7106976.20_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。