server/catgenome/src/main/java/com/epam/catgenome/manager/bam/sifters/StandardSAMRecordSifter.java (3 lines):
	- line 76: // TODO: int maxReadCount - decide reads or coverage by by read count
	- line 165: //checkExceedsLimit(); TODO: uncomment
	- line 173: //checkExceedsLimit(); TODO: uncomment


server/catgenome/src/main/java/com/epam/catgenome/entity/index/VcfIndexEntry.java (3 lines):
	- line 53: private VariationType variationType; //TODO: remove, use variationTypes
	- line 54: private String gene; //TODO: remove, use geneIdList
	- line 56: private String geneName; //TODO: remove, use geneNameList


server/catgenome/src/main/java/com/epam/catgenome/dao/index/indexer/BigVcfDocumentBuilder.java (2 lines):
	- line 142: new BytesRef(entry.getChromosome().getName()), Field.Store.YES)); // TODO: change to string?
	- line 222: .getFieldName()); //TODO: remove, in future only binary


server/catgenome/src/main/java/com/epam/catgenome/util/BamUtil.java (2 lines):
	- line 136: // TODO: int maxReadCount - decide reads or coverage by by read count
	- line 210: // TODO: int maxReadCount - decide reads or coverage by by read count


server/catgenome/src/main/java/com/epam/catgenome/util/feature/reader/TabixReader.java (2 lines):
	- line 386: public int[] parseReg(final String reg) { // FIXME: NOT working when the sequence name contains : or -.
	- line 422: } else { // FIXME: SAM supports are not tested yet


client/client/app/components/ngbPathways/ngbInternalPathwayNode/ngbInternalPathwayNode.scss (1 line):
	- line 19: // TODO: make export from SCSS to JS


server/catgenome/src/main/java/com/epam/catgenome/util/feature/reader/TribbleIndexedFeatureReader.java (1 line):
	- line 264: // TODO -- warning I don't think this can work, the buffered input stream screws up position


server/ngb-cli/src/main/java/com/epam/ngb/cli/manager/command/handler/http/AbstractHTTPCommandHandler.java (1 line):
	- line 323: //TODO: remove this method and all connected logic when ID and BiologicalDataItemID are merged on the server


server/catgenome/src/main/java/com/epam/catgenome/manager/bam/BamManager.java (1 line):
	- line 275: // TODO: track.getEndIndex() - track.getStartIndex() > maxCoverageRange


client/client/app/shared/components/ngbMainToolbar/ngbShareLinkMenu/ngbShareLinkMenu.controller.js (1 line):
	- line 56: //TODO: replace indexer with a settings section name


server/catgenome/src/main/java/com/epam/catgenome/manager/protein/ProteinSequenceManager.java (1 line):
	- line 109: unless = "#result == null") //TODO: remove?


server/ngb-cli/src/main/java/com/epam/ngb/cli/entity/BiologicalDataItem.java (1 line):
	- line 132: //TODO move to a separate class


server/catgenome/src/main/java/com/epam/catgenome/manager/person/PersonManager.java (1 line):
	- line 47: public class PersonManager { // TODO: remove


server/catgenome/src/main/java/com/epam/catgenome/app/AppMVCConfiguration.java (1 line):
	- line 145: /*@Bean //TODO: may be useful if we'll need to move swagger back to restapi


server/catgenome/src/main/java/com/epam/catgenome/security/BrowserUser.java (1 line):
	- line 45: public class BrowserUser extends User { // TODO: remove


client/client/app/components/ngbVariantsTablePanel/ngbVariantsTable/ngbVariantsTable.controller.js (1 line):
	- line 228: // TODO: manage variants from tracks opened by url


server/catgenome/src/main/java/com/epam/catgenome/security/jwt/JwtAuthenticationProvider.java (1 line):
	- line 56: UserContext context = new UserContext(jwtRawToken, claims); //TODO: load a user from database? create a user?


server/ngb-cli/src/main/java/com/epam/ngb/cli/constants/MessageConstants.java (1 line):
	- line 32: //TODO: move messages to external file


server/catgenome/src/main/java/com/epam/catgenome/manager/dataitem/DataItemSecurityService.java (1 line):
	- line 71: //TODO: fix to @PreAuthorize


client/client/modules/render/heatmap/color-scheme/color-configuration.js (1 line):
	- line 66: // TODO: fix behaviour difference then options are from colorConfiguration and from plain object


server/ngb-cli/src/main/java/com/epam/ngb/cli/entity/Project.java (1 line):
	- line 125: //TODO move to a separate class


server/ngb-cli/src/main/java/com/epam/ngb/cli/app/Application.java (1 line):
	- line 59: //TODO: move documentation to an outer file


client/client/app/components/ngbPathways/ngbCytoscapePathway/ngbCytoscapePathway.controller.js (1 line):
	- line 28: // TODO: make export from SCSS to JS


server/catgenome/src/main/java/com/epam/catgenome/dao/index/indexer/VcfDocumentBuilder.java (1 line):
	- line 149: //TODO: remove, in future only binary value will remain


server/catgenome/src/main/java/com/epam/catgenome/manager/bam/sifters/FullResultSifter.java (1 line):
	- line 52: // TODO: int maxReadCount - decide reads or coverage by by read count


server/catgenome/src/main/java/com/epam/catgenome/manager/bam/sifters/ConstantMemorySAMRecordSampler.java (1 line):
	- line 153: //TODO: remove method from interface? It is unused