Job ID = 1303860 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T11:36:20 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 ) 2019-06-03T11:36:36 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 ) 2019-06-03T11:36:36 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 ) 2019-06-03T11:36:57 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 ) 2019-06-03T11:40:06 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 : 21,802,283 reads read : 21,802,283 reads written : 21,802,283 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: 00:06:30 21802283 reads; of these: 21802283 (100.00%) were unpaired; of these: 457278 (2.10%) aligned 0 times 16328347 (74.89%) aligned exactly 1 time 5016658 (23.01%) aligned >1 times 97.90% overall alignment rate Time searching: 00:06:30 Overall time: 00:06:30 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 8 files... [bam_rmdupse_core] 4464989 / 21345005 = 0.2092 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 20:54:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.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 20:54:13: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:54:13: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:54:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.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 20:54:13: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:54:13: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:54:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.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 20:54:13: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:54:13: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:54:21: 1000000 INFO @ Mon, 03 Jun 2019 20:54:24: 1000000 INFO @ Mon, 03 Jun 2019 20:54:24: 1000000 INFO @ Mon, 03 Jun 2019 20:54:28: 2000000 INFO @ Mon, 03 Jun 2019 20:54:34: 2000000 INFO @ Mon, 03 Jun 2019 20:54:34: 2000000 INFO @ Mon, 03 Jun 2019 20:54:36: 3000000 INFO @ Mon, 03 Jun 2019 20:54:43: 3000000 INFO @ Mon, 03 Jun 2019 20:54:43: 4000000 INFO @ Mon, 03 Jun 2019 20:54:44: 3000000 INFO @ Mon, 03 Jun 2019 20:54:51: 5000000 INFO @ Mon, 03 Jun 2019 20:54:51: 4000000 INFO @ Mon, 03 Jun 2019 20:54:54: 4000000 INFO @ Mon, 03 Jun 2019 20:54:58: 6000000 INFO @ Mon, 03 Jun 2019 20:55:00: 5000000 INFO @ Mon, 03 Jun 2019 20:55:05: 5000000 INFO @ Mon, 03 Jun 2019 20:55:06: 7000000 INFO @ Mon, 03 Jun 2019 20:55:09: 6000000 INFO @ Mon, 03 Jun 2019 20:55:13: 8000000 INFO @ Mon, 03 Jun 2019 20:55:15: 6000000 INFO @ Mon, 03 Jun 2019 20:55:17: 7000000 INFO @ Mon, 03 Jun 2019 20:55:21: 9000000 INFO @ Mon, 03 Jun 2019 20:55:25: 7000000 INFO @ Mon, 03 Jun 2019 20:55:26: 8000000 INFO @ Mon, 03 Jun 2019 20:55:28: 10000000 INFO @ Mon, 03 Jun 2019 20:55:34: 9000000 INFO @ Mon, 03 Jun 2019 20:55:35: 8000000 INFO @ Mon, 03 Jun 2019 20:55:36: 11000000 INFO @ Mon, 03 Jun 2019 20:55:43: 10000000 INFO @ Mon, 03 Jun 2019 20:55:43: 12000000 INFO @ Mon, 03 Jun 2019 20:55:45: 9000000 INFO @ Mon, 03 Jun 2019 20:55:51: 13000000 INFO @ Mon, 03 Jun 2019 20:55:51: 11000000 INFO @ Mon, 03 Jun 2019 20:55:54: 10000000 INFO @ Mon, 03 Jun 2019 20:55:58: 14000000 INFO @ Mon, 03 Jun 2019 20:55:59: 12000000 INFO @ Mon, 03 Jun 2019 20:56:04: 11000000 INFO @ Mon, 03 Jun 2019 20:56:06: 15000000 INFO @ Mon, 03 Jun 2019 20:56:08: 13000000 INFO @ Mon, 03 Jun 2019 20:56:13: 16000000 INFO @ Mon, 03 Jun 2019 20:56:14: 12000000 INFO @ Mon, 03 Jun 2019 20:56:16: 14000000 INFO @ Mon, 03 Jun 2019 20:56:20: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:56:20: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:56:20: #1 total tags in treatment: 16880016 INFO @ Mon, 03 Jun 2019 20:56:20: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:56:20: #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 20:56:20: #1 tags after filtering in treatment: 16880016 INFO @ Mon, 03 Jun 2019 20:56:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:56:20: #1 finished! INFO @ Mon, 03 Jun 2019 20:56:20: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:56:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:56:22: #2 number of paired peaks: 54 WARNING @ Mon, 03 Jun 2019 20:56:22: Too few paired peaks (54) 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 20:56:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.10_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/SRX495169/SRX495169.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:56:24: 13000000 INFO @ Mon, 03 Jun 2019 20:56:25: 15000000 INFO @ Mon, 03 Jun 2019 20:56:33: 16000000 INFO @ Mon, 03 Jun 2019 20:56:33: 14000000 INFO @ Mon, 03 Jun 2019 20:56:40: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:56:40: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:56:40: #1 total tags in treatment: 16880016 INFO @ Mon, 03 Jun 2019 20:56:40: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:56:40: #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 20:56:41: #1 tags after filtering in treatment: 16880016 INFO @ Mon, 03 Jun 2019 20:56:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:56:41: #1 finished! INFO @ Mon, 03 Jun 2019 20:56:41: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:56:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:56:42: #2 number of paired peaks: 54 WARNING @ Mon, 03 Jun 2019 20:56:42: Too few paired peaks (54) 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 20:56:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.05_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/dm3/SRX495169/SRX495169.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:56:43: 15000000 INFO @ Mon, 03 Jun 2019 20:56:52: 16000000 INFO @ Mon, 03 Jun 2019 20:57:01: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:57:01: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:57:01: #1 total tags in treatment: 16880016 INFO @ Mon, 03 Jun 2019 20:57:01: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:57:01: #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 20:57:01: #1 tags after filtering in treatment: 16880016 INFO @ Mon, 03 Jun 2019 20:57:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:57:01: #1 finished! INFO @ Mon, 03 Jun 2019 20:57:01: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:57:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:57:02: #2 number of paired peaks: 54 WARNING @ Mon, 03 Jun 2019 20:57:02: Too few paired peaks (54) 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 20:57:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.20_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/dm3/SRX495169/SRX495169.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495169/SRX495169.20_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。