| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/grid/test/ |
| H A D | test_netschedule_stress.cpp | 131 NcbiCout << NcbiEndl << "Done." << NcbiEndl; in TestBatchSubmit()
165 NcbiCout << NcbiEndl << "Done." << NcbiEndl; in TestBatchSubmit()
269 NcbiCout << NcbiEndl << "Done." << NcbiEndl; in Run()
280 NcbiCout << NcbiEndl << "Waiting..." << NcbiEndl; in Run()
282 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in Run()
313 NcbiCout << NcbiEndl << "Waiting..." << NcbiEndl; in Run()
315 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in Run()
347 NcbiCout << NcbiEndl << "Waiting..." << NcbiEndl; in Run()
349 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in Run()
357 NcbiCout << NcbiEndl << "Processing..." << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/netschedule/test/ |
| H A D | test_netschedule_crash.cpp | 326 NcbiCout << NcbiEndl << "Done." << NcbiEndl; in Submit()
339 NcbiCout << NcbiEndl in GetStatus()
374 NcbiCout << NcbiEndl in GetStatus()
386 NcbiCout << NcbiEndl << "Take and Return " << count << " jobs..." << NcbiEndl; in GetReturn()
479 NcbiCout << NcbiEndl << "Processing..." << NcbiEndl; in GetDone()
609 NcbiCout << NcbiEndl in MainLoop()
734 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in x_Run()
743 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in x_Run()
752 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in x_Run()
761 NcbiCout << NcbiEndl << "Ok." << NcbiEndl; in x_Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/db/bdb/ |
| H A D | bdb_env.cpp | 834 out << "st_id : " << stp->st_id << NcbiEndl in PrintLockStat()
835 << "st_cur_maxid : " << stp->st_cur_maxid << NcbiEndl in PrintLockStat()
836 << "st_nmodes : " << stp->st_nmodes << NcbiEndl in PrintLockStat()
837 << "st_maxlocks : " << stp->st_maxlocks << NcbiEndl in PrintLockStat()
838 << "st_maxlockers : " << stp->st_maxlockers << NcbiEndl in PrintLockStat()
839 << "st_maxobjects : " << stp->st_maxobjects << NcbiEndl in PrintLockStat()
840 << "st_nlocks : " << stp->st_nlocks << NcbiEndl in PrintLockStat()
841 << "st_maxnlocks : " << stp->st_maxnlocks << NcbiEndl in PrintLockStat()
842 << "st_nlockers : " << stp->st_nlockers << NcbiEndl in PrintLockStat()
843 << "st_maxnlockers : " << stp->st_maxnlockers << NcbiEndl in PrintLockStat()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/read_blast_result/ |
| H A D | read_blast_result_lib.cpp | 161 << NcbiEndl; in printOverlapReport()
171 << NcbiEndl; in printOverlapReport()
172 out << NcbiEndl; in printOverlapReport()
191 out << NcbiEndl; in printGeneralInfo()
201 out << NcbiEndl; in printGeneralInfo()
210 out << NcbiEndl; in printGeneralInfo()
217 out << NcbiEndl; in printGeneralInfo()
224 out << NcbiEndl; in printGeneralInfo()
227 out << NcbiEndl; in printGeneralInfo()
244 << NcbiEndl; in printReport()
[all …]
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| H A D | problems.cpp | 113 << NcbiEndl; in reportProblems()
235 << NcbiEndl; in reportProblemType()
247 << NcbiEndl; in reportProblemSequenceName()
300 << NcbiEndl; in FixStrands()
311 << NcbiEndl; in FixStrands()
337 << NcbiEndl; in RemoveProblems()
358 << NcbiEndl; in RemoveProblems()
378 << NcbiEndl; in RemoveProblems()
426 << NcbiEndl; in NormalizeSeqentry()
615 NcbiCerr << NcbiEndl; in RemoveProblems()
[all …]
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| H A D | fit_blast.cpp | 44 if(PrintDetails()) NcbiCerr << "fit_blast, seq level " << NcbiEndl; in fit_blast()
55 if(PrintDetails()) NcbiCerr << "left is aa" << NcbiEndl; in fit_blast()
57 if(PrintDetails()) NcbiCerr << "right is aa" << NcbiEndl; in fit_blast()
85 NcbiCerr << "Strands mismatch for " << NcbiEndl; in fit_blast()
86 NcbiCerr << "left " << GetStringDescr (left) << NcbiEndl; in fit_blast()
87 NcbiCerr << "right " << GetStringDescr (right) << NcbiEndl; in fit_blast()
91 if(PrintDetails()) NcbiCerr << "Matching strands" << NcbiEndl; in fit_blast()
94 if(PrintDetails()) NcbiCerr << "space: " << space << NcbiEndl; in fit_blast()
170 << NcbiEndl; in fit_blast()
371 if(PrintDetails()) NcbiCerr << "has_blast_hits?" << NcbiEndl; in has_blast_hits()
[all …]
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| H A D | match.cpp | 47 << diag_name << NcbiEndl; in match_na()
72 << type2 << NcbiEndl; in match_na()
131 buffer << "start bp: " << gabs_left << NcbiEndl; in match_na()
151 buffer << "start bp: " << gabs_left << NcbiEndl; in match_na()
168 << ") does not even overlap" << NcbiEndl; in match_na()
169 buffer << "start bp: " << gabs_left << NcbiEndl; in match_na()
174 << NcbiEndl; in match_na()
191 buffer << "start bp: " << gabs_left << NcbiEndl; in match_na()
193 buffer << "overlap: " << goverlap << NcbiEndl; in match_na()
252 << NcbiEndl; in match_na()
[all …]
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| H A D | missing.cpp | 54 if(PrintDetails()) NcbiCerr << "CheckMissingRibosomalRNA[annots] ends" << NcbiEndl; in CheckMissingRibosomalRNA()
154 if(PrintDetails()) NcbiCerr << "simple_overlaps starts: " << NcbiEndl; in simple_overlaps()
193 << NcbiEndl; in simple_overlaps()
195 if(PrintDetails()) NcbiCerr << "seq2->type = " << seq2->type << NcbiEndl; in simple_overlaps()
196 if(PrintDetails()) NcbiCerr << "strand = " << int(strand) << NcbiEndl; in simple_overlaps()
235 << NcbiEndl; in simple_overlaps()
259 << NcbiEndl; in simple_overlaps()
268 if(PrintDetails()) NcbiCerr << "simple_overlaps ends: " << NcbiEndl; in simple_overlaps()
296 << printed_range(first_user_in_range) << NcbiEndl; in get_neighboring_sequences()
333 << first_in_range_set << NcbiEndl; in get_neighboring_sequences()
[all …]
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| H A D | copy_loc.cpp | 40 if(PrintDetails()) NcbiCerr << "CopyInfoFromGenesToProteins: start" << NcbiEndl; in CopyInfoFromGenesToProteins()
48 if(PrintDetails()) NcbiCerr << "CopyInfoFromGenesToProteins: found DNA" << NcbiEndl; in CopyInfoFromGenesToProteins()
62 if(PrintDetails()) NcbiCerr << "CopyInfoFromGenesToProteins: seqset" << NcbiEndl; in CopyInfoFromGenesToProteins()
65 << seq->GetAnnot().size() << " Annotations" << NcbiEndl; in CopyInfoFromGenesToProteins()
108 << NcbiEndl; in CopyInfoFromGenesToProteins()
113 if(PrintDetails()) NcbiCerr << "CopyInfoFromGenesToProteins: end" << NcbiEndl; in CopyInfoFromGenesToProteins()
145 if(PrintDetails()) NcbiCerr << "addLocation: without table,oops" << NcbiEndl; in addLocation()
148 if(PrintDetails()) NcbiCerr << "addLocation: with table" << NcbiEndl; in addLocation()
195 if(PrintDetails()) NcbiCerr << "processAnnot: annotation has no features" << NcbiEndl; in processAnnot()
198 if(PrintDetails()) NcbiCerr << "processAnnot: with features" << NcbiEndl; in processAnnot()
[all …]
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| H A D | read_blast_result.cpp | 290 if(PrintDetails() ) NcbiCerr << NcbiEndl << "Execution started" << NcbiEndl << NcbiEndl; in Run()
426 << NcbiEndl; in Run()
440 << NcbiEndl; in Run()
454 << NcbiEndl; in Run()
469 << NcbiEndl; in Run()
481 << NcbiEndl; in Run()
493 << NcbiEndl; in Run()
507 << NcbiEndl; in Run()
519 << NcbiEndl; in Run()
531 << NcbiEndl; in Run()
[all …]
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| H A D | overlaps.cpp | 352 << NcbiEndl; in overlaps_prot_na()
430 << NcbiEndl; in overlaps_prot_na()
456 << NcbiEndl; in overlaps_na()
562 << NcbiEndl; in complete_overlap()
589 if(PrintDetails()) NcbiCerr << "left is aa" << NcbiEndl; in overlaps()
591 if(PrintDetails()) NcbiCerr << "right is aa" << NcbiEndl; in overlaps()
645 << NcbiEndl; in overlaps()
698 << NcbiEndl; in overlaps()
711 << qname << NcbiEndl; in overlaps()
719 << NcbiEndl; in overlaps()
[all …]
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| H A D | read_blast.cpp | 44 if(PrintDetails()) NcbiCerr<<"ReadBlast()" << NcbiEndl; in ReadBlast()
69 << NcbiEndl; in ReadBlast()
82 << NcbiEndl; in ReadBlast()
109 << NcbiEndl; in ReadBlast()
114 << NcbiEndl; in ReadBlast()
345 if(PrintDetails()) NcbiCerr<< "endhit" << NcbiEndl; in ReadBlast()
389 NcbiCerr<<NcbiEndl; in StoreBlast()
396 << m_parent.size() << NcbiEndl; in StoreBlast()
584 << thisHitStr.q_end << NcbiEndl; in ProcessCDD()
589 << thisHitStr.sbjend << NcbiEndl; in ProcessCDD()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/connect/test/ |
| H A D | test_ncbi_http_stream.cpp | 145 NcbiCerr << "\tTEMP good:\t" << int(temp.good()) << NcbiEndl in Run()
146 << "\tTEMP eof:\t" << int(temp.eof()) << NcbiEndl in Run()
147 << "\tTEMP fail:\t" << int(temp.fail()) << NcbiEndl in Run()
153 NcbiCerr << "\tStatus code:\t" << http.GetStatusCode() << NcbiEndl in Run()
154 << "\tStatus text:\t" << http.GetStatusText() << NcbiEndl in Run()
156 << '(' << int(status) << ')' << NcbiEndl in Run()
157 << "\tHTTP good:\t" << int(http.good()) << NcbiEndl in Run()
158 << "\tHTTP eof:\t" << int(http.eof()) << NcbiEndl in Run()
159 << "\tHTTP fail:\t" << int(http.fail()) << NcbiEndl in Run()
163 << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/cgi/test/ |
| H A D | cgitest.cpp | 231 NcbiCout << NcbiEndl; in PrintIndexes()
346 << NcbiEndl; in TestCgi_Request_Full()
349 << NcbiEndl; in TestCgi_Request_Full()
369 NcbiCout << cookies << NcbiEndl; in TestCgi_Request_Full()
407 NcbiCout << is->rdbuf() << NcbiEndl << NcbiEndl; in TestCgi_Request_Full()
417 NcbiCout << str << NcbiEndl << url << NcbiEndl; in TestCgiMisc()
429 NcbiCout << str << NcbiEndl << url << NcbiEndl; in TestCgiMisc()
594 NcbiCout << "End of simple HTTP response" << NcbiEndl << NcbiEndl; in TestCgiResponse()
605 NcbiCout << "End of HTTP response" << NcbiEndl << NcbiEndl; in TestCgiResponse()
613 NcbiCout << "End of HTTP \"raw CGI\" response" << NcbiEndl << NcbiEndl; in TestCgiResponse()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/gumbel_params/demo/ |
| H A D | gumbelparams_app.cpp | 284 << NcbiEndl << NcbiEndl; in Run()
289 << NcbiEndl << NcbiEndl; in Run()
295 " smaller than toscore." << NcbiEndl << NcbiEndl; in Run()
327 << NcbiEndl; in Run()
407 << NcbiEndl << NcbiEndl; in Run()
415 NcbiCerr << "Warning: " << *it << NcbiEndl << NcbiEndl; in Run()
442 << NcbiEndl; in Run()
444 << NcbiEndl; in Run()
452 << g_params.ai_error << NcbiEndl; in Run()
460 << " seconds" << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/align_format/ |
| H A D | aln_printer.cpp | 173 ostr << NcbiEndl; in x_PrintFastaPlusGaps()
179 ostr << NcbiEndl; in x_PrintFastaPlusGaps()
183 ostr << NcbiEndl; in x_PrintFastaPlusGaps()
239 ostr << NcbiEndl; in x_PrintPhylipSequential()
277 ostr << NcbiEndl; in x_PrintPhylipInterleaved()
288 ostr << NcbiEndl; in x_PrintPhylipInterleaved()
312 ostr << "#NEXUS" << NcbiEndl << NcbiEndl in x_PrintNexus()
316 << NcbiEndl in x_PrintNexus()
321 << NcbiEndl in x_PrintNexus()
343 ostr << NcbiEndl; in x_PrintNexus()
[all …]
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/align_format/ |
| H A D | aln_printer.cpp | 173 ostr << NcbiEndl; in x_PrintFastaPlusGaps()
179 ostr << NcbiEndl; in x_PrintFastaPlusGaps()
183 ostr << NcbiEndl; in x_PrintFastaPlusGaps()
239 ostr << NcbiEndl; in x_PrintPhylipSequential()
277 ostr << NcbiEndl; in x_PrintPhylipInterleaved()
288 ostr << NcbiEndl; in x_PrintPhylipInterleaved()
312 ostr << "#NEXUS" << NcbiEndl << NcbiEndl in x_PrintNexus()
316 << NcbiEndl in x_PrintNexus()
321 << NcbiEndl in x_PrintNexus()
343 ostr << NcbiEndl; in x_PrintNexus()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/corelib/test/ |
| H A D | test_condvar.cpp | 52 # define __TEST_OUTPUT(x) NcbiCout << idx << x << NcbiEndl
334 << NcbiEndl in TestApp_Init()
338 << NcbiEndl; in TestApp_Init()
348 << NcbiEndl << " QueueSize = " << m_QueueSize in TestApp_Exit()
352 << NcbiEndl << " TotalRetired = " << m_TotalRetired in TestApp_Exit()
353 << NcbiEndl; in TestApp_Exit()
357 NcbiCout << "done" << NcbiEndl; in TestApp_Exit()
370 << NcbiEndl in main()
372 << NcbiEndl in main()
374 << NcbiEndl in main()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/objmgr/demo/ |
| H A D | objmgr_demo.cpp | 787 << NcbiEndl; in GetIds()
794 << NcbiEndl; in GetIds()
800 << NcbiEndl; in GetIds()
805 << NcbiEndl; in GetIds()
1328 << NcbiEndl; in Run()
1332 << NcbiEndl; in Run()
1496 NcbiEndl; in Run()
1555 NcbiCout << NcbiEndl; in Run()
2416 << NcbiEndl; in Run()
2656 << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/test/ |
| H A D | test_objmgr_basic.cpp | 143 NcbiCout << "1.1.1 Creating CScope ==============================" << NcbiEndl; in Run()
203 NcbiCout << "Expecting exception:" << NcbiEndl; in Run()
206 NcbiCout << "ERROR: AddDataLoader has succeeded" << NcbiEndl; in Run()
210 NcbiCout << "Expected exception: " << e.what() << NcbiEndl; in Run()
216 NcbiCout << "Expecting error:" << NcbiEndl; in Run()
226 NcbiCout << "Expecting exception:" << NcbiEndl; in Run()
233 NcbiCout << "Expected exception: " << e.what() << NcbiEndl; in Run()
287 NcbiCout << "==================================================" << NcbiEndl; in Run()
288 NcbiCout << "ERROR " << error << ": Some tests failed." << NcbiEndl; in Run()
291 NcbiCout << "==================================================" << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/seqtable/test/ |
| H A D | test_seq_table.cpp | 173 NcbiCout << "Passed." << NcbiEndl; in Run()
232 NcbiCout << "Size: " << size << NcbiEndl; in VerifyBool()
346 << NcbiEndl; in TestSparseIndex()
471 << NcbiEndl; in TestMultiDataBit()
480 NcbiCout << "Testing int." << NcbiEndl; in TestMultiDataBit()
498 NcbiCout << "Testing bit." << NcbiEndl; in TestMultiDataBit()
564 << NcbiEndl; in TestMultiDataBitDelta()
579 NcbiCout << "Testing int." << NcbiEndl; in TestMultiDataBitDelta()
695 << NcbiEndl; in TestMultiDataInt()
700 NcbiCout << "Testing int." << NcbiEndl; in TestMultiDataInt()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/sra/readers/bam/test/ |
| H A D | bam_compare.cpp | 225 out << "File: " << path << NcbiEndl; in Run()
519 << NcbiEndl; in Run()
605 << NcbiEndl; in Run()
609 << NcbiEndl; in Run()
613 << NcbiEndl; in Run()
619 << NcbiEndl; in Run()
770 << NcbiEndl; in Run()
828 << NcbiEndl; in Run()
911 << NcbiEndl; in Run()
915 << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/sra/readers/sra/test/ |
| H A D | wgs_test.cpp | 530 << NcbiEndl; in Run()
585 << NcbiEndl; in Run()
745 << NcbiEndl; in Run()
754 << NcbiEndl; in Run()
785 << NcbiEndl; in Run()
819 out << NcbiEndl; in Run()
834 << NcbiEndl; in Run()
852 << NcbiEndl; in Run()
870 << NcbiEndl; in Run()
888 << NcbiEndl; in Run()
[all …]
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/util/test/ |
| H A D | test_row_reader_performance.cpp | 82 NcbiCout << "Number of rows: " << row_count << NcbiEndl in Run()
83 << "Number of items in each row: " << item_count << NcbiEndl in Run()
84 << "Data file: " << fname << NcbiEndl; in Run()
89 NcbiCout << "Could not open data file " << fname << NcbiEndl; in Run()
126 << " Read value: " << row[fno].Get<int>() << NcbiEndl; in Read()
129 << " as CTempString." << NcbiEndl; in Read()
133 NcbiCout << "Number of rows read: " << read_row_count << NcbiEndl in Read()
134 << "Number of fields read: " << read_field_count << NcbiEndl; in Read()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/connect/services/test/ |
| H A D | test_netcache_api.cpp | 203 << NcbiEndl; in s_ReportStatistics()
754 stress_test_repetitions << NcbiEndl << NcbiEndl;
757 NcbiCout << NcbiEndl << "BLOB write statistics:" << NcbiEndl;
759 NcbiCout << NcbiEndl << "BLOB read statistics:" << NcbiEndl;
761 NcbiCout << NcbiEndl << NcbiEndl;
765 NcbiCout << NcbiEndl << "BLOB write statistics:" << NcbiEndl;
767 NcbiCout << NcbiEndl << "BLOB read statistics:" << NcbiEndl;
772 NcbiCout << NcbiEndl << "BLOB write statistics:" << NcbiEndl;
774 NcbiCout << NcbiEndl << "BLOB read statistics:" << NcbiEndl;
779 NcbiCout << NcbiEndl << "BLOB write statistics:" << NcbiEndl;
[all …]
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