Job ID = 1304226 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T11:39:40 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 ) 2019-06-03T11:39:40 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 ) 2019-06-03T11:39:40 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 : 19,728,174 reads read : 19,728,174 reads written : 19,728,174 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: 00:04:59 19728174 reads; of these: 19728174 (100.00%) were unpaired; of these: 3300438 (16.73%) aligned 0 times 13430281 (68.08%) aligned exactly 1 time 2997455 (15.19%) aligned >1 times 83.27% overall alignment rate Time searching: 00:04:59 Overall time: 00:04:59 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3287695 / 16427736 = 0.2001 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 20:49:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.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 20:49:56: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:49:56: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:49:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.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 20:49:56: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:49:56: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:49:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.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 20:49:56: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:49:56: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:50:04: 1000000 INFO @ Mon, 03 Jun 2019 20:50:05: 1000000 INFO @ Mon, 03 Jun 2019 20:50:06: 1000000 INFO @ Mon, 03 Jun 2019 20:50:12: 2000000 INFO @ Mon, 03 Jun 2019 20:50:13: 2000000 INFO @ Mon, 03 Jun 2019 20:50:16: 2000000 INFO @ Mon, 03 Jun 2019 20:50:19: 3000000 INFO @ Mon, 03 Jun 2019 20:50:21: 3000000 INFO @ Mon, 03 Jun 2019 20:50:25: 3000000 INFO @ Mon, 03 Jun 2019 20:50:27: 4000000 INFO @ Mon, 03 Jun 2019 20:50:29: 4000000 INFO @ Mon, 03 Jun 2019 20:50:34: 5000000 INFO @ Mon, 03 Jun 2019 20:50:35: 4000000 INFO @ Mon, 03 Jun 2019 20:50:37: 5000000 INFO @ Mon, 03 Jun 2019 20:50:42: 6000000 INFO @ Mon, 03 Jun 2019 20:50:44: 5000000 INFO @ Mon, 03 Jun 2019 20:50:44: 6000000 INFO @ Mon, 03 Jun 2019 20:50:49: 7000000 INFO @ Mon, 03 Jun 2019 20:50:52: 7000000 INFO @ Mon, 03 Jun 2019 20:50:53: 6000000 INFO @ Mon, 03 Jun 2019 20:50:57: 8000000 INFO @ Mon, 03 Jun 2019 20:51:00: 8000000 INFO @ Mon, 03 Jun 2019 20:51:02: 7000000 INFO @ Mon, 03 Jun 2019 20:51:04: 9000000 INFO @ Mon, 03 Jun 2019 20:51:08: 9000000 INFO @ Mon, 03 Jun 2019 20:51:11: 8000000 INFO @ Mon, 03 Jun 2019 20:51:11: 10000000 INFO @ Mon, 03 Jun 2019 20:51:16: 10000000 INFO @ Mon, 03 Jun 2019 20:51:19: 11000000 INFO @ Mon, 03 Jun 2019 20:51:21: 9000000 INFO @ Mon, 03 Jun 2019 20:51:24: 11000000 INFO @ Mon, 03 Jun 2019 20:51:26: 12000000 INFO @ Mon, 03 Jun 2019 20:51:30: 10000000 INFO @ Mon, 03 Jun 2019 20:51:32: 12000000 INFO @ Mon, 03 Jun 2019 20:51:34: 13000000 INFO @ Mon, 03 Jun 2019 20:51:35: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:51:35: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:51:35: #1 total tags in treatment: 13140041 INFO @ Mon, 03 Jun 2019 20:51:35: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:51:35: #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 20:51:35: #1 tags after filtering in treatment: 13140041 INFO @ Mon, 03 Jun 2019 20:51:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:51:35: #1 finished! INFO @ Mon, 03 Jun 2019 20:51:35: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:51:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:51:37: #2 number of paired peaks: 26 WARNING @ Mon, 03 Jun 2019 20:51:37: Too few paired peaks (26) 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 20:51:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.05_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/SRX495179/SRX495179.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:51:40: 13000000 INFO @ Mon, 03 Jun 2019 20:51:41: 11000000 INFO @ Mon, 03 Jun 2019 20:51:41: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:51:41: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:51:41: #1 total tags in treatment: 13140041 INFO @ Mon, 03 Jun 2019 20:51:41: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:51:41: #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 20:51:41: #1 tags after filtering in treatment: 13140041 INFO @ Mon, 03 Jun 2019 20:51:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:51:41: #1 finished! INFO @ Mon, 03 Jun 2019 20:51:41: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:51:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:51:42: #2 number of paired peaks: 26 WARNING @ Mon, 03 Jun 2019 20:51:42: Too few paired peaks (26) 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 20:51:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.20_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/SRX495179/SRX495179.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:51:50: 12000000 INFO @ Mon, 03 Jun 2019 20:51:59: 13000000 INFO @ Mon, 03 Jun 2019 20:52:00: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:52:00: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:52:00: #1 total tags in treatment: 13140041 INFO @ Mon, 03 Jun 2019 20:52:00: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:52:00: #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 20:52:00: #1 tags after filtering in treatment: 13140041 INFO @ Mon, 03 Jun 2019 20:52:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:52:00: #1 finished! INFO @ Mon, 03 Jun 2019 20:52:00: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:52:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:52:01: #2 number of paired peaks: 26 WARNING @ Mon, 03 Jun 2019 20:52:01: Too few paired peaks (26) 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 20:52:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.10_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/SRX495179/SRX495179.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495179/SRX495179.10_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。