Job ID = 4289608 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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 ) spots read : 27,383,756 reads read : 54,767,512 reads written : 27,383,756 reads 0-length : 27,383,756 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: 00:04:31 27383756 reads; of these: 27383756 (100.00%) were unpaired; of these: 1722936 (6.29%) aligned 0 times 20329294 (74.24%) aligned exactly 1 time 5331526 (19.47%) aligned >1 times 93.71% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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 12 files... [bam_rmdupse_core] 13363758 / 25660820 = 0.5208 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 15:13:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.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 15:13:21: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:13:21: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:13:27: 1000000 INFO @ Tue, 10 Dec 2019 15:13:33: 2000000 INFO @ Tue, 10 Dec 2019 15:13:40: 3000000 INFO @ Tue, 10 Dec 2019 15:13:46: 4000000 INFO @ Tue, 10 Dec 2019 15:13:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.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 15:13:51: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:13:51: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:13:52: 5000000 INFO @ Tue, 10 Dec 2019 15:13:58: 6000000 INFO @ Tue, 10 Dec 2019 15:13:59: 1000000 INFO @ Tue, 10 Dec 2019 15:14:04: 7000000 INFO @ Tue, 10 Dec 2019 15:14:06: 2000000 INFO @ Tue, 10 Dec 2019 15:14:10: 8000000 INFO @ Tue, 10 Dec 2019 15:14:13: 3000000 INFO @ Tue, 10 Dec 2019 15:14:17: 9000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:14:20: 4000000 INFO @ Tue, 10 Dec 2019 15:14:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.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 15:14:21: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:14:21: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:14:23: 10000000 INFO @ Tue, 10 Dec 2019 15:14:27: 5000000 INFO @ Tue, 10 Dec 2019 15:14:28: 1000000 INFO @ Tue, 10 Dec 2019 15:14:29: 11000000 INFO @ Tue, 10 Dec 2019 15:14:34: 6000000 INFO @ Tue, 10 Dec 2019 15:14:35: 2000000 INFO @ Tue, 10 Dec 2019 15:14:35: 12000000 INFO @ Tue, 10 Dec 2019 15:14:37: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:14:37: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:14:37: #1 total tags in treatment: 12297062 INFO @ Tue, 10 Dec 2019 15:14:37: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:14:37: #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 15:14:37: #1 tags after filtering in treatment: 12297062 INFO @ Tue, 10 Dec 2019 15:14:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:14:37: #1 finished! INFO @ Tue, 10 Dec 2019 15:14:37: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:14:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:14:38: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:14:38: 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 15:14:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.05_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/sacCer3/SRX7106979/SRX7106979.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:14:41: 7000000 INFO @ Tue, 10 Dec 2019 15:14:42: 3000000 INFO @ Tue, 10 Dec 2019 15:14:48: 8000000 INFO @ Tue, 10 Dec 2019 15:14:48: 4000000 INFO @ Tue, 10 Dec 2019 15:14:55: 5000000 INFO @ Tue, 10 Dec 2019 15:14:55: 9000000 INFO @ Tue, 10 Dec 2019 15:15:02: 6000000 INFO @ Tue, 10 Dec 2019 15:15:02: 10000000 INFO @ Tue, 10 Dec 2019 15:15:08: 7000000 INFO @ Tue, 10 Dec 2019 15:15:09: 11000000 INFO @ Tue, 10 Dec 2019 15:15:15: 8000000 INFO @ Tue, 10 Dec 2019 15:15:16: 12000000 INFO @ Tue, 10 Dec 2019 15:15:18: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:15:18: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:15:18: #1 total tags in treatment: 12297062 INFO @ Tue, 10 Dec 2019 15:15:18: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:15:18: #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 15:15:19: #1 tags after filtering in treatment: 12297062 INFO @ Tue, 10 Dec 2019 15:15:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:15:19: #1 finished! INFO @ Tue, 10 Dec 2019 15:15:19: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:15:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:15:20: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:15:20: 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 15:15:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.10_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/SRX7106979/SRX7106979.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:15:22: 9000000 INFO @ Tue, 10 Dec 2019 15:15:28: 10000000 INFO @ Tue, 10 Dec 2019 15:15:35: 11000000 INFO @ Tue, 10 Dec 2019 15:15:42: 12000000 INFO @ Tue, 10 Dec 2019 15:15:44: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:15:44: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:15:44: #1 total tags in treatment: 12297062 INFO @ Tue, 10 Dec 2019 15:15:44: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:15:44: #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 15:15:44: #1 tags after filtering in treatment: 12297062 INFO @ Tue, 10 Dec 2019 15:15:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:15:44: #1 finished! INFO @ Tue, 10 Dec 2019 15:15:44: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:15:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:15:45: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:15:45: 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 15:15:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.20_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/SRX7106979/SRX7106979.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106979/SRX7106979.20_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。