Job ID = 1295390 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T04:33:20 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 ) 2019-06-03T04:33:20 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 ) 2019-06-03T04:37:09 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 : 23,779,885 reads read : 23,779,885 reads written : 23,779,885 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: 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: 00:05:29 23779885 reads; of these: 23779885 (100.00%) were unpaired; of these: 2749965 (11.56%) aligned 0 times 19054542 (80.13%) aligned exactly 1 time 1975378 (8.31%) aligned >1 times 88.44% overall alignment rate Time searching: 00:05:29 Overall time: 00:05:29 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 4843264 / 21029920 = 0.2303 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 @ Mon, 03 Jun 2019 13:48:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 13:48:56: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:48:56: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:48:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 13:48:56: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:48:56: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:48:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 13:48:56: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:48:56: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:49:04: 1000000 INFO @ Mon, 03 Jun 2019 13:49:05: 1000000 INFO @ Mon, 03 Jun 2019 13:49:05: 1000000 INFO @ Mon, 03 Jun 2019 13:49:11: 2000000 INFO @ Mon, 03 Jun 2019 13:49:13: 2000000 INFO @ Mon, 03 Jun 2019 13:49:13: 2000000 INFO @ Mon, 03 Jun 2019 13:49:18: 3000000 INFO @ Mon, 03 Jun 2019 13:49:20: 3000000 INFO @ Mon, 03 Jun 2019 13:49:21: 3000000 INFO @ Mon, 03 Jun 2019 13:49:24: 4000000 INFO @ Mon, 03 Jun 2019 13:49:28: 4000000 INFO @ Mon, 03 Jun 2019 13:49:28: 4000000 INFO @ Mon, 03 Jun 2019 13:49:31: 5000000 INFO @ Mon, 03 Jun 2019 13:49:35: 5000000 INFO @ Mon, 03 Jun 2019 13:49:36: 5000000 INFO @ Mon, 03 Jun 2019 13:49:38: 6000000 INFO @ Mon, 03 Jun 2019 13:49:43: 6000000 INFO @ Mon, 03 Jun 2019 13:49:44: 6000000 INFO @ Mon, 03 Jun 2019 13:49:45: 7000000 INFO @ Mon, 03 Jun 2019 13:49:51: 7000000 INFO @ Mon, 03 Jun 2019 13:49:51: 7000000 INFO @ Mon, 03 Jun 2019 13:49:52: 8000000 INFO @ Mon, 03 Jun 2019 13:49:58: 8000000 INFO @ Mon, 03 Jun 2019 13:49:59: 9000000 INFO @ Mon, 03 Jun 2019 13:49:59: 8000000 INFO @ Mon, 03 Jun 2019 13:50:06: 10000000 INFO @ Mon, 03 Jun 2019 13:50:06: 9000000 INFO @ Mon, 03 Jun 2019 13:50:07: 9000000 INFO @ Mon, 03 Jun 2019 13:50:13: 11000000 INFO @ Mon, 03 Jun 2019 13:50:14: 10000000 INFO @ Mon, 03 Jun 2019 13:50:15: 10000000 INFO @ Mon, 03 Jun 2019 13:50:19: 12000000 INFO @ Mon, 03 Jun 2019 13:50:21: 11000000 INFO @ Mon, 03 Jun 2019 13:50:23: 11000000 INFO @ Mon, 03 Jun 2019 13:50:26: 13000000 INFO @ Mon, 03 Jun 2019 13:50:29: 12000000 INFO @ Mon, 03 Jun 2019 13:50:30: 12000000 INFO @ Mon, 03 Jun 2019 13:50:33: 14000000 INFO @ Mon, 03 Jun 2019 13:50:36: 13000000 INFO @ Mon, 03 Jun 2019 13:50:38: 13000000 INFO @ Mon, 03 Jun 2019 13:50:40: 15000000 INFO @ Mon, 03 Jun 2019 13:50:44: 14000000 INFO @ Mon, 03 Jun 2019 13:50:46: 14000000 INFO @ Mon, 03 Jun 2019 13:50:47: 16000000 INFO @ Mon, 03 Jun 2019 13:50:48: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:50:48: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:50:48: #1 total tags in treatment: 16186656 INFO @ Mon, 03 Jun 2019 13:50:48: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:50:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 13:50:48: #1 tags after filtering in treatment: 16186656 INFO @ Mon, 03 Jun 2019 13:50:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:50:48: #1 finished! INFO @ Mon, 03 Jun 2019 13:50:48: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:50:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:50:50: #2 number of paired peaks: 24 WARNING @ Mon, 03 Jun 2019 13:50:50: Too few paired peaks (24) 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 @ Mon, 03 Jun 2019 13:50:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.10_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/dm3/SRX335517/SRX335517.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:50:51: 15000000 INFO @ Mon, 03 Jun 2019 13:50:53: 15000000 INFO @ Mon, 03 Jun 2019 13:50:59: 16000000 INFO @ Mon, 03 Jun 2019 13:51:00: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:51:00: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:51:00: #1 total tags in treatment: 16186656 INFO @ Mon, 03 Jun 2019 13:51:00: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:51:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 13:51:01: #1 tags after filtering in treatment: 16186656 INFO @ Mon, 03 Jun 2019 13:51:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:51:01: #1 finished! INFO @ Mon, 03 Jun 2019 13:51:01: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:51:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:51:01: 16000000 INFO @ Mon, 03 Jun 2019 13:51:02: #2 number of paired peaks: 24 WARNING @ Mon, 03 Jun 2019 13:51:02: Too few paired peaks (24) 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 @ Mon, 03 Jun 2019 13:51:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.20_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/dm3/SRX335517/SRX335517.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:51:03: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:51:03: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:51:03: #1 total tags in treatment: 16186656 INFO @ Mon, 03 Jun 2019 13:51:03: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:51:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 13:51:03: #1 tags after filtering in treatment: 16186656 INFO @ Mon, 03 Jun 2019 13:51:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:51:03: #1 finished! INFO @ Mon, 03 Jun 2019 13:51:03: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:51:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:51:04: #2 number of paired peaks: 24 WARNING @ Mon, 03 Jun 2019 13:51:04: Too few paired peaks (24) 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 @ Mon, 03 Jun 2019 13:51:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.05_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/dm3/SRX335517/SRX335517.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335517/SRX335517.05_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。