Job ID = 1293738 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T17:02:17 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 ) 2019-06-02T17:02:17 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 ) 2019-06-02T17:09:16 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 ) 2019-06-02T17:09:16 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 : 15,013,137 reads read : 15,013,137 reads written : 15,013,137 2019-06-02T17:12:40 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 : 7,215,432 reads read : 7,215,432 reads written : 7,215,432 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: 00:04:32 22228569 reads; of these: 22228569 (100.00%) were unpaired; of these: 8804889 (39.61%) aligned 0 times 11650757 (52.41%) aligned exactly 1 time 1772923 (7.98%) aligned >1 times 60.39% overall alignment rate Time searching: 00:04:32 Overall time: 00:04:32 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_rmdupse_core] 1833981 / 13423680 = 0.1366 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 02:24:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.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 02:24:10: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:24:10: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:24:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.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 02:24:10: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:24:10: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:24:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.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 02:24:10: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:24:10: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:24:17: 1000000 INFO @ Mon, 03 Jun 2019 02:24:20: 1000000 INFO @ Mon, 03 Jun 2019 02:24:20: 1000000 INFO @ Mon, 03 Jun 2019 02:24:25: 2000000 INFO @ Mon, 03 Jun 2019 02:24:29: 2000000 INFO @ Mon, 03 Jun 2019 02:24:30: 2000000 INFO @ Mon, 03 Jun 2019 02:24:32: 3000000 INFO @ Mon, 03 Jun 2019 02:24:38: 3000000 INFO @ Mon, 03 Jun 2019 02:24:39: 3000000 INFO @ Mon, 03 Jun 2019 02:24:40: 4000000 INFO @ Mon, 03 Jun 2019 02:24:47: 5000000 INFO @ Mon, 03 Jun 2019 02:24:47: 4000000 INFO @ Mon, 03 Jun 2019 02:24:48: 4000000 INFO @ Mon, 03 Jun 2019 02:24:54: 6000000 INFO @ Mon, 03 Jun 2019 02:24:56: 5000000 INFO @ Mon, 03 Jun 2019 02:24:58: 5000000 INFO @ Mon, 03 Jun 2019 02:25:02: 7000000 INFO @ Mon, 03 Jun 2019 02:25:05: 6000000 INFO @ Mon, 03 Jun 2019 02:25:07: 6000000 INFO @ Mon, 03 Jun 2019 02:25:09: 8000000 INFO @ Mon, 03 Jun 2019 02:25:14: 7000000 INFO @ Mon, 03 Jun 2019 02:25:16: 7000000 INFO @ Mon, 03 Jun 2019 02:25:16: 9000000 INFO @ Mon, 03 Jun 2019 02:25:24: 8000000 INFO @ Mon, 03 Jun 2019 02:25:24: 10000000 INFO @ Mon, 03 Jun 2019 02:25:26: 8000000 INFO @ Mon, 03 Jun 2019 02:25:31: 11000000 INFO @ Mon, 03 Jun 2019 02:25:33: 9000000 INFO @ Mon, 03 Jun 2019 02:25:35: 9000000 INFO @ Mon, 03 Jun 2019 02:25:36: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:25:36: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:25:36: #1 total tags in treatment: 11589699 INFO @ Mon, 03 Jun 2019 02:25:36: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:25:36: #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 02:25:36: #1 tags after filtering in treatment: 11589699 INFO @ Mon, 03 Jun 2019 02:25:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:25:36: #1 finished! INFO @ Mon, 03 Jun 2019 02:25:36: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:25:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:25:37: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 02:25:37: 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 @ Mon, 03 Jun 2019 02:25:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.20_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/SRX111819/SRX111819.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 02:25:42: 10000000 INFO @ Mon, 03 Jun 2019 02:25:45: 10000000 INFO @ Mon, 03 Jun 2019 02:25:51: 11000000 INFO @ Mon, 03 Jun 2019 02:25:54: 11000000 INFO @ Mon, 03 Jun 2019 02:25:57: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:25:57: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:25:57: #1 total tags in treatment: 11589699 INFO @ Mon, 03 Jun 2019 02:25:57: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:25:57: #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 02:25:57: #1 tags after filtering in treatment: 11589699 INFO @ Mon, 03 Jun 2019 02:25:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:25:57: #1 finished! INFO @ Mon, 03 Jun 2019 02:25:57: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:25:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:25:58: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 02:25:58: 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 @ Mon, 03 Jun 2019 02:25:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.05_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/SRX111819/SRX111819.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 02:26:00: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:26:00: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:26:00: #1 total tags in treatment: 11589699 INFO @ Mon, 03 Jun 2019 02:26:00: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:26:00: #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 02:26:00: #1 tags after filtering in treatment: 11589699 INFO @ Mon, 03 Jun 2019 02:26:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:26:00: #1 finished! INFO @ Mon, 03 Jun 2019 02:26:00: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:26:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:26:01: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 02:26:01: 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 @ Mon, 03 Jun 2019 02:26:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.10_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/SRX111819/SRX111819.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111819/SRX111819.10_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。