Job ID = 2009882 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:25:12 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 : 11,552,476 reads read : 11,552,476 reads written : 11,552,476 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: 00:01:56 11552476 reads; of these: 11552476 (100.00%) were unpaired; of these: 530138 (4.59%) aligned 0 times 8762878 (75.85%) aligned exactly 1 time 2259460 (19.56%) aligned >1 times 95.41% overall alignment rate Time searching: 00:01:56 Overall time: 00:01:56 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 8 files... [bam_rmdupse_core] 6531815 / 11022338 = 0.5926 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 @ Fri, 05 Jul 2019 20:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.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 @ Fri, 05 Jul 2019 20:33:28: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:33:28: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.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 @ Fri, 05 Jul 2019 20:33:28: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:33:28: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:33:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.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 @ Fri, 05 Jul 2019 20:33:29: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:33:29: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:33:34: 1000000 INFO @ Fri, 05 Jul 2019 20:33:37: 1000000 INFO @ Fri, 05 Jul 2019 20:33:38: 1000000 INFO @ Fri, 05 Jul 2019 20:33:41: 2000000 INFO @ Fri, 05 Jul 2019 20:33:46: 2000000 INFO @ Fri, 05 Jul 2019 20:33:47: 3000000 INFO @ Fri, 05 Jul 2019 20:33:48: 2000000 INFO @ Fri, 05 Jul 2019 20:33:54: 4000000 INFO @ Fri, 05 Jul 2019 20:33:56: 3000000 INFO @ Fri, 05 Jul 2019 20:33:57: 3000000 INFO @ Fri, 05 Jul 2019 20:33:57: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:33:57: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:33:57: #1 total tags in treatment: 4490523 INFO @ Fri, 05 Jul 2019 20:33:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:33:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:33:57: #1 tags after filtering in treatment: 4490523 INFO @ Fri, 05 Jul 2019 20:33:57: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:33:57: #1 finished! INFO @ Fri, 05 Jul 2019 20:33:57: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:33:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:33:57: #2 number of paired peaks: 28 WARNING @ Fri, 05 Jul 2019 20:33:57: Too few paired peaks (28) 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 @ Fri, 05 Jul 2019 20:33:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.05_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/sacCer3/SRX2148733/SRX2148733.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:34:05: 4000000 INFO @ Fri, 05 Jul 2019 20:34:06: 4000000 INFO @ Fri, 05 Jul 2019 20:34:09: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:34:09: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:34:09: #1 total tags in treatment: 4490523 INFO @ Fri, 05 Jul 2019 20:34:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:34:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:34:09: #1 tags after filtering in treatment: 4490523 INFO @ Fri, 05 Jul 2019 20:34:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:34:09: #1 finished! INFO @ Fri, 05 Jul 2019 20:34:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:34:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:34:10: #2 number of paired peaks: 28 WARNING @ Fri, 05 Jul 2019 20:34:10: Too few paired peaks (28) 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 @ Fri, 05 Jul 2019 20:34:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.10_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/sacCer3/SRX2148733/SRX2148733.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:34:10: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:34:10: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:34:10: #1 total tags in treatment: 4490523 INFO @ Fri, 05 Jul 2019 20:34:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:34:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 20:34:10: #1 tags after filtering in treatment: 4490523 INFO @ Fri, 05 Jul 2019 20:34:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:34:10: #1 finished! INFO @ Fri, 05 Jul 2019 20:34:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:34:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:34:11: #2 number of paired peaks: 28 WARNING @ Fri, 05 Jul 2019 20:34:11: Too few paired peaks (28) 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 @ Fri, 05 Jul 2019 20:34:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.20_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/SRX2148733/SRX2148733.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148733/SRX2148733.20_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。