pyncbitk-runtime 29.9.0.0__tar.gz → 30.6.0.0__tar.gz

{pyncbitk_runtime-29.9.0.0 → pyncbitk_runtime-30.6.0.0}/PKG-INFO

@@ -1,35 +1,14 @@
-Metadata-Version: 2.2
+Metadata-Version: 2.4
 Name: pyncbitk-runtime
-Version: 29.9.0.0
+Version: 30.6.0.0
 Summary: Runtime component of the NCBI C++ Toolkit to use in PyNCBItk.
 Keywords: bioinformatics,blast,sequence,alignment,ncbi
 Author-Email: Martin Larralde <martin.larralde@embl.de>
-License: MIT License
-         
-         Copyright (c) 2024 Martin Larralde <martin.larralde@embl.de>
-         
-         Permission is hereby granted, free of charge, to any person obtaining a copy
-         of this software and associated documentation files (the "Software"), to deal
-         in the Software without restriction, including without limitation the rights
-         to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-         copies of the Software, and to permit persons to whom the Software is
-         furnished to do so, subject to the following conditions:
-         
-         The above copyright notice and this permission notice shall be included in all
-         copies or substantial portions of the Software.
-         
-         THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-         IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-         FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-         AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-         LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-         OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
-         SOFTWARE.
-         
+License-Expression: MIT AND NCBI-PD
+License-File: COPYING
 Classifier: Development Status :: 4 - Beta
 Classifier: Intended Audience :: Developers
 Classifier: Intended Audience :: Science/Research
-Classifier: License :: OSI Approved :: MIT License
 Classifier: Operating System :: OS Independent
 Classifier: Programming Language :: C++
 Classifier: Topic :: Scientific/Engineering :: Bio-Informatics

{pyncbitk_runtime-29.9.0.0 → pyncbitk_runtime-30.6.0.0}/conanfile.txt

@@ -1,5 +1,5 @@
 [requires]
-ncbi-cxx-toolkit-public/29.9.0
+ncbi-cxx-toolkit-public/30.6.0
 libiconv/1.17
 [options]
 ncbi-cxx-toolkit-public/*:with_components=algo;core;objects;seqext;loaders

{pyncbitk_runtime-29.9.0.0 → pyncbitk_runtime-30.6.0.0}/pyproject.toml

@@ -2,17 +2,18 @@
 build-backend = "scikit_build_core_conan.build"
 requires = [
     "scikit-build-core-conan==0.7.1 ; python_version <= '3.8'", 
-    "scikit-build-core-conan>=0.8.0 ; python_version > '3.8'", 
+    "scikit-build-core-conan~=0.9.0 ; python_version > '3.8'", 
     "cython >=3.0"
 ]
 
 [project]
 name = "pyncbitk-runtime"
-version = "29.9.0.0"
+version = "30.6.0.0"
 description = "Runtime component of the NCBI C++ Toolkit to use in PyNCBItk."
 readme = "README.md"
 requires-python = ">=3.7"
-license = { file = "COPYING" }
+license = "MIT AND NCBI-PD"
+license-files = ["COPYING"]
 authors = [
   { name = "Martin Larralde", email = "martin.larralde@embl.de" },
 ]
@@ -21,7 +22,6 @@ classifiers = [
     "Development Status :: 4 - Beta",
     "Intended Audience :: Developers",
     "Intended Audience :: Science/Research",
-    "License :: OSI Approved :: MIT License",
     "Operating System :: OS Independent",
     "Programming Language :: C++",
     "Topic :: Scientific/Engineering :: Bio-Informatics",
@@ -46,7 +46,7 @@ settings = ["compiler.cppstd=20"]
 [[tool.scikit-build-core-conan.local-recipes]]
 path = "vendor/ncbi-cxx-toolkit-conan"
 name = "ncbi-cxx-toolkit-public"
-version = "29.9.0"
+version = "30.6.0"
 
 [tool.scikit-build]
 build-dir = "build/{build_type}"

pyncbitk_runtime-30.6.0.0/vendor/ncbi-cxx-toolkit-conan/CMakeLists.txt

@@ -0,0 +1,4 @@
+cmake_minimum_required(VERSION 3.15)
+project(ncbi-cpp)
+include(src/build-system/cmake/CMake.NCBItoolkit.cmake)
+add_subdirectory(src)

{pyncbitk_runtime-29.9.0.0 → pyncbitk_runtime-30.6.0.0}/vendor/ncbi-cxx-toolkit-conan/README.md

@@ -30,50 +30,74 @@ then the Toolkit itself. It is not always clear what exactly is required. Conan'
 <a name="recipe_Env"></a>
 ## Preparing work environment.
 
-First, you need Conan (and, to install Conan, you need Python). For instructions of how to install Conan, please refer to [Conan's documentation](https://docs.conan.io/2/installation.html).
+First, you need Conan (and, to install Conan, you need Python).
+For detailed instructions of how to install Conan,
+please refer to [Conan's documentation](https://docs.conan.io/2/installation.html).
 
-On February 22, 2023 Conan 2.0 was released. It is a major upgrade, which features new public API, new build system integration and new graph model to represent relations between packages. What is important is that it is not always backward compatible with Conan 1.X.
+Create a python virtual environment and activate it:
 
-The Toolkit recipe is fully compatible both with Conan 1.X and 2.X. We strongly recommend using Conan2.
+    $ cd ~
+    $ python -m venv demo_venv
+    $ source ~/demo_venv/bin/activate
 
-Install Conan:
+Install Conan python package:
 
-    pip install conan
+    (demo_venv) $ pip install conan
 
-or, to install a specific version:
+The command above installs the latest version of the Conan package. It should
+work in most of the cases however a particular version could also be specified,
+e.g.:
 
-    pip install conan==2.13.0
+    (demo_venv) $ pip install conan==2.28.1
 
-If needed, upgrade Conan installation:
 
-    pip install conan --upgrade
+If a previously existed python virtual environment was used then it could have
+had an old version of the Conan package. In this case the Conan package can be
+upgraded:
 
-Next, check the list of Conan repositories and add *center.conan.io*:
+    (demo_venv) $ pip install conan --upgrade
 
-    $ conan remote add conancenter https://center2.conan.io
-    $ conan remote list
+Next, check the list of Conan repositories and add *center2.conan.io*, if needed:
+
+    (demo_venv) $ conan remote add conancenter https://center2.conan.io
+    (demo_venv) $ conan remote list
     conancenter: https://center2.conan.io [Verify SSL: True]
 
-Make sure *cmake* is found in *PATH*. On MacOS and Windows this might require correcting the *PATH* environment variable.
+Install *cmake*:
+
+    (demo_env) $ pip install cmake
+
 Finally. NCBI C++ Toolkit is large. Building it locally requires a lot of disk space. By default, Conan's local cache is located 
-in user home directory, which, most likely does not have enough space. To place Conan's cache into another location, 
+in the user home directory. If by some reasons the user home directory does not have enough space
+then the Conan's cache location needs to be moved somewhere else. To do so
 you should define [CONAN_HOME](https://docs.conan.io/2/reference/environment.html) environment variable.
 
 Check the list of Conan [profiles](https://docs.conan.io/2/reference/commands/profile.html). Create *default* one:
 
-    conan profile list
-    conan profile detect
-    conan profile show
+    (demo_venv) $ conan profile list
+    (demo_venv) $ conan profile detect
+    (demo_venv) $ conan profile show
 
 Profiles can only be edited manually. Find profile location:
 
-    conan profile path default
+    (demo_venv) $ conan profile path default
+
+The command above prints a full path to the default profile. Open the file and
+check the compiler.cppstd entry. It should say
+
+    compiler.cppstd=gnu20
+
+Conan detection of a C++ compiler standard may vary. E.g. some "reasonably
+gnu20 capable" compilers such as GCC-13 will be detected as gnu17 (because they
+run in the gnu17 mode by default). In such cases the detected value must be
+manually adjusted in the conan profile. The NCBI C++ Toolkit requires C++
+standard at least gnu20.
+
 
 Clone this repository and export the recipe into the local Conan cache:
 
-    git clone https://github.com/ncbi/ncbi-cxx-toolkit-conan.git
-    cd ncbi-cxx-toolkit-conan
-    conan export . --version 29.0.0
+    (demo_venv) $ git clone https://github.com/ncbi/ncbi-cxx-toolkit-conan.git
+    (demo_venv) $ conan export ncbi-cxx-toolkit-conan --version 30.2.0
 
 Please check *conandata.yml* file in this repository for the list of existing NCBI C++ Toolkit versions.
 
@@ -81,44 +105,57 @@ Please check *conandata.yml* file in this repository for the list of existing NC
 <a name="recipe_Build"></a>
 ## Building your project.
 
-Let us build [blast_demo](https://github.com/ncbi/ncbi-cxx-toolkit-public/blob/master/src/sample/app/blast/CMakeLists.blast_demo.app.txt) sample application.
-It requires one source file and some unknown number of the Toolkit libraries. 
-What we know for sure is that we need *blastinput* library.
+Building of an application is demonstrated using a
+[blast_demo](https://github.com/ncbi/ncbi-cxx-toolkit-public/blob/master/src/sample/app/blast/CMakeLists.blast_demo.app.txt)
+sample application. In addition to the source code of the application some
+NCBI C++ toolkit libraries are required. What we know for sure is that we need *blastinput* library.
+Let's create a working directory for the demo application:
+
+    $ mkdir ~/blast_demo
+    $ cd ~/blast_demo
+
+To build it locally 3 files are needed. First is the application C++ source
+file. It can be retrieved from a NCBI C++ Toolkit github repository as follows:
+
+    $ wget https://raw.githubusercontent.com/ncbi/ncbi-cxx-toolkit-public/master/src/sample/app/blast/blast_demo.cpp
+
 
-Copy *blast_demo.cpp* into a local directory. Next to it, create [*conanfile.py*](https://docs.conan.io/2/reference/conanfile.html):
+The second file [*conanfile.py*](https://docs.conan.io/2/reference/conanfile.html)
+needs to be created manually with the following content:
 
     from conan import ConanFile
-    from conan.tools.cmake import cmake_layout
+    from conan.tools.cmake import cmake_layout, CMake
     class NCBIapp(ConanFile):
         settings = "os", "compiler", "build_type", "arch"
         generators = "CMakeDeps", "CMakeToolchain", "VirtualRunEnv"
         def requirements(self):
-            self.requires("ncbi-cxx-toolkit-public/[>=29]")
+            self.requires("ncbi-cxx-toolkit-public/[~30]")
         def layout(self):
             cmake_layout(self, src_folder=".")
+        def build(self):
+            cmake = CMake(self)
+            cmake.configure()
+            cmake.build()
 
-It is also possible to use [*conanfile.txt*](https://docs.conan.io/2/reference/conanfile_txt.html) - a simplified version of *conanfile.py*:
+The third file *CMakeLists.txt* (*blastinput* library is included into
+*blast* [component](#recipe_Components)) needs to be created manually as well
+with the following content:
 
-    [requires]
-    ncbi-cxx-toolkit-public/29.0.0
-    [layout]
-    cmake_layout
-    [generators]
-    CMakeDeps
-    CMakeToolchain
-    VirtualRunEnv
+    cmake_minimum_required(VERSION 3.16)
+    project(my_blast_demo_app)
+    find_package(ncbi-cxx-toolkit-public REQUIRED)
+    add_executable(blast_demo blast_demo.cpp)
+    target_link_libraries(blast_demo ncbi-cxx-toolkit-public::blast)
 
-It is difficult to say what is better, but *conanfile.py* definitely provides greater
-[flexibility](https://docs.conan.io/2/tutorial/consuming_packages/the_flexibility_of_conanfile_py.html)
+[Build](https://docs.conan.io/2/reference/commands/build.html) the application:
 
-Add *CMakeLists.txt* (*blastinput* library is included into *blast* [component](#recipe_Components)):
+    (demo_venv) $ conan build . -s build_type=Release --build missing
 
-    cmake_minimum_required(VERSION 3.16)
-    project(conanapp)
-    set(ncbitk ncbi-cxx-toolkit-public)
-    find_package(${ncbitk} REQUIRED)
-    add_executable(blast_demo blast_demo.cpp)
-    target_link_libraries(blast_demo ${ncbitk}::blast)
+Conan installs dependencies, and executes the recipe's *build* method, which runs cmake configure and build.
+Upon a successful completion the application binary will be located at
+*~/blast_demo/build/Release/blast_demo*.
+
+Another options is to run CMake manually:
 
 Install build requirements, in the source directory run
 
@@ -221,7 +258,8 @@ Here is the list of the Toolkit components:
 |loader-wgs| ncbi_xloader_vdbgraph ncbi_xloader_wgs|
 |loaders| data_loaders_util ncbi_xloader_patcher xflatfile|
 |objects| access biblio biotree blastdb blastxml blastxml2 cdd cn3d docsum efetch entrez2 entrez2cli entrezgene featdef gbproj gbseq gencoll_client generalasn genesbyloc genome_collection homologene insdseq local_taxon macro medlars medline mim mmdb ncbimime objcoords objprt pcassay pcassay2 pcsubstance proj pub pubmed remap remapcli scoremat searchbyrsid seq seqcode seqedit seqset seqtest submit taxon1 taxon3 tinyseq trackmgr trackmgrcli variation xnetblast xnetblastcli|
-|psg-client| psg_client psg_protobuf|
+|psg-client| psg_client|
+|psg-server| psg_cache psg_ipg psg_myncbi psg_cassandra psg_protobuf|
 |seqext| blast_services blastdb_format id1 id1cli id2 id2_split id2cli seqdb seqmasks_io seqsplit snputil uudutil valerr valid variation_utils writedb xalnmgr xcleanupxdiscrepancy xformat xhugeasn xlogging xobjedit xobjimport xobjmanip xobjmgr xobjread xobjreadex xobjutil xobjwrite xunittestutil xvalidate|
 |sqlitewrapp| sqlitewrapp|
 |sraread| sraread srareadx|
@@ -233,7 +271,7 @@ Here is the list of the Toolkit components:
 ## Supported 3rd party packages.
 
 The Toolkit uses a number of 3-rd party packages. In the Toolkit code they are known by their aliases.
-The following is the list of packages supported by *ncbi-cxx-toolkit-public* Conan recipe, as of October 2024:
+The following is the list of packages supported by *ncbi-cxx-toolkit-public* Conan recipe, as of January 2026:
 
 |Alias|Conan package|
 |--------|------------|
@@ -246,7 +284,7 @@ The following is the list of packages supported by *ncbi-cxx-toolkit-public* Con
 |LMDB|lmdb|
 |LZO|lzo|
 |NGHTTP2|libnghttp2|
-|PCRE|pcre|
+|PCRE2|pcre2|
 |PNG|libpng|
 |PROTOBUF|protobuf|
 |SQLITE3|sqlite3|
@@ -286,12 +324,15 @@ First two parameters to *NCBI_generate_cpp* receive lists of generated files - s
 
 [gRPC](https://grpc.io) is an open source high performance Remote Procedure Call framework. By default, gRPC uses [Protocol Buffers](https://developers.google.com/protocol-buffers/docs/overview), Google’s open source mechanism for serializing structured data.
 
-First, make sure your project contains proper requirements. For example, conanfile.txt may request *protobuf* and *grpc*:
+First, make sure your project contains proper requirements. For example, conanfile.txt may request *protobuf* and *grpc* (note *tool_requires* part):
 
     [requires]
-    ncbi-cxx-toolkit-public/29.0.0
+    ncbi-cxx-toolkit-public/30.2.0
     protobuf/5.27.0
-    grpc/1.67.1
+    grpc/1.72.0
+    [tool_requires]
+    protobuf/<host_version>
+    grpc/<host_version>
 
 Next, you can use their own mechanisms, or the same NCBI function *NCBI_generate_cpp*:
 

pyncbitk_runtime-30.6.0.0/vendor/ncbi-cxx-toolkit-conan/components.yml

@@ -0,0 +1,328 @@
+# Component model for ncbi-cxx-toolkit-public 30.x
+# Each component defines: libraries, dependencies (other components),
+# and external Conan package requirements (using Conan target names).
+components:
+  core:
+    libraries:
+      - xconnext
+      - xxconnect2
+      - xalgovmerge
+      - ncbi_xcache_netcache
+      - ncbi_core
+      - xconnserv
+      - xcompress
+      - xthrserv
+      - xregexp
+      - xser
+      - sequtil
+      - xconnect
+      - xdiff
+      - xqueryparse
+      - xutil
+      - tables
+      - xncbi
+      - zcf
+    dependencies: []
+    requires:
+      - zlib::zlib
+      - bzip2::bzip2
+      - lzo::lzo
+      - zstd::zstd
+      - pcre2::pcre2
+      - libuv::libuv
+      - libnghttp2::libnghttp2
+      - backward-cpp::backward-cpp
+      - libunwind::libunwind
+  algo:
+    libraries:
+      - ncbi_algo
+      - prosplign
+      - xalgoalignsplign
+      - cobalt
+      - proteinkmer
+      - xalgocontig_assembly
+      - xalgoalignutil
+      - xblastformat
+      - phytree_format
+      - xblast
+      - xalgoseqqa
+      - xprimer
+      - xalgognomon
+      - xalgowinmask
+      - xalgoblastdbindex
+      - xalgophytree
+      - xalgoseq
+      - xalgoalignnw
+      - xalgodustmask
+      - xalgosegmask
+      - xid_mapper
+      - xalgotext
+      - composition_adjustment
+      - fastme
+      - utrtprof
+    dependencies: [align-format, sqlitewrapp]
+    requires: []
+  algo-ms:
+    libraries: [ncbi_algo_ms, xomssa, omssa, pepXML]
+    dependencies: [algo]
+    requires: []
+  algo-structure:
+    libraries: [ncbi_algo_structure, xcd_utils, xstruct_util, xstruct_thread, xstruct_dp]
+    dependencies: [algo, objects]
+    requires: []
+  align-format:
+    libraries: [xalntool, ncbi_align_format, align_format]
+    dependencies: [loader-genbank, web]
+    requires: []
+  bamread:
+    libraries: [bamread]
+    dependencies: [objects]
+    requires: []
+  blast:
+    libraries:
+      - xngalign
+      - vdb2blast
+      - igblast
+      - ncbi_blastinput
+      - blastinput
+      - blast_sra_input
+      - xmergetree
+      - xalgoblastdbindex_search
+      - gumbelparams
+    dependencies: [loader-blastdb, algo, sraread]
+    requires: []
+  dbapi:
+    libraries:
+      - sdbapi
+      - dbapi_util_blobstore
+      - ncbi_xdbapi_ftds
+      - ncbi_xdbapi_ftds14
+      - ncbi_dbapi
+      - dbapi
+      - ncbi_dbapi_driver
+      - dbapi_driver
+      - ct_ftds14
+      - tds_ftds14
+    dependencies: [core]
+    requires:
+      - libiconv::libiconv
+  eutils:
+    libraries:
+      - eutils_client
+      - ncbi_eutils
+      - eutils
+      - egquery
+      - ehistory
+      - einfo
+      - elink
+      - epost
+      - esearch
+      - espell
+      - esummary
+      - linkout
+      - uilist
+    dependencies: [objects, xmlwrapp]
+    requires: []
+  grpc:
+    libraries: [grpc_integration]
+    dependencies: [core]
+    requires:
+      - grpc::grpc
+      - protobuf::protobuf
+  image:
+    libraries: [ncbi_image, ximage]
+    dependencies: [core]
+    requires:
+      - libjpeg::libjpeg
+      - libpng::libpng
+      - giflib::giflib
+      - libtiff::libtiff
+  loader-asncache:
+    libraries: [ncbi_xloader_asn_cache, asn_cache, ncbi_xcache_bdb, ncbi_bdb, bdb]
+    dependencies: [seqext]
+    requires:
+      - libdb::libdb
+  loader-bam:
+    libraries: [ncbi_xloader_bam]
+    dependencies: [bamread, seqext]
+    requires: []
+  loader-blastdb:
+    libraries: [ncbi_xloader_blastdb_rmt, ncbi_xloader_blastdb]
+    dependencies: [seqext]
+    requires: []
+  loader-cdd:
+    libraries: [ncbi_xloader_cdd, cdd_access]
+    dependencies: [seqext]
+    requires: []
+  loader-genbank:
+    libraries:
+      - ncbi_xobjsimple
+      - xobjsimple
+      - ncbi_xloader_genbank
+      - ncbi_xreader_cache
+      - ncbi_xreader_gicache
+      - ncbi_xreader_id1
+      - ncbi_xreader_id2
+      - ncbi_xreader_pubseqos
+      - ncbi_xreader_pubseqos2
+      - ncbi_xreader
+      - eMyNCBI_result
+    dependencies: [psg-client, dbapi]
+    requires: []
+  loader-lds2:
+    libraries: [ncbi_xloader_lds2, ncbi_lds2, lds2]
+    dependencies: [seqext, sqlitewrapp]
+    requires: []
+  loader-snp:
+    libraries: [ncbi_xloader_snp, dbsnp_ptis]
+    dependencies: [sraread, grpc]
+    requires: []
+  loader-sra:
+    libraries: [ncbi_xloader_sra, ncbi_xloader_csra]
+    dependencies: [sraread]
+    requires: []
+  loader-wgs:
+    libraries: [ncbi_xloader_vdbgraph, ncbi_xloader_wgs]
+    dependencies: [sraread]
+    requires: []
+  loaders:
+    libraries: [xflatfile, data_loaders_util, ncbi_xloader_patcher]
+    dependencies: [loader-asncache, loader-blastdb, loader-genbank, loader-lds2]
+    requires: []
+  objects:
+    libraries:
+      - searchbyrsid
+      - ncbi_trackmgr
+      - gbproj
+      - trackmgrcli
+      - trackmgr
+      - ncbi_mmdb
+      - ncbimime
+      - cdd
+      - cn3d
+      - mmdb
+      - pcassay2
+      - ncbi_misc
+      - proj
+      - remapcli
+      - remap
+      - pcassay
+      - entrezgene
+      - pcsubstance
+      - entrez2cli
+      - biotree
+      - access
+      - docsum
+      - entrez2
+      - featdef
+      - gbseq
+      - genesbyloc
+      - insdseq
+      - mim
+      - objcoords
+      - objprt
+      - tinyseq
+      - gencoll_client
+      - local_taxon
+      - macro
+      - homologene
+      - ncbi_seq
+      - blastdb
+      - xnetblastcli
+      - xnetblast
+      - scoremat
+      - seqedit
+      - submit
+      - genome_collection
+      - seqtest
+      - taxon1
+      - taxon3
+      - variation
+      - seqset
+      - seq
+      - blastxml
+      - blastxml2
+      - seqcode
+      - efetch
+      - ncbi_pub
+      - pub
+      - pubmed
+      - medlars
+      - medline
+      - biblio
+      - ncbi_general
+      - generalasn
+    dependencies: [sqlitewrapp, core]
+    requires: []
+  psg-client:
+    libraries: [psg_client]
+    dependencies: [seqext]
+    requires: []
+  psg-server:
+    libraries: [psg_cache, psg_ipg, psg_myncbi, psg_cassandra, psg_protobuf]
+    dependencies: [objects, xmlwrapp]
+    requires:
+      - lmdb::lmdb
+      - libcurl::libcurl
+      - cassandra-cpp-driver::cassandra-cpp-driver
+      - grpc::grpc
+      - protobuf::protobuf
+  seqext:
+    libraries:
+      - ncbi_validator
+      - xvalidate
+      - ncbi_xdiscrepancy
+      - xdiscrepancy
+      - ncbi_seqext
+      - xobjwrite
+      - xformat
+      - blastdb_format
+      - writedb
+      - seqmasks_io
+      - xcleanup
+      - blast_services
+      - seqdb
+      - variation_utils
+      - xalnmgr
+      - xobjedit
+      - xobjreadex
+      - xobjimport
+      - xunittestutil
+      - id2cli
+      - id2_split
+      - snputil
+      - uudutil
+      - xhugeasn
+      - xobjutil
+      - xobjread
+      - id2
+      - id1cli
+      - xobjmgr
+      - id1
+      - seqsplit
+      - valerr
+      - xobjmanip
+      - valid
+      - xlogging
+    dependencies: [eutils, objects]
+    requires:
+      - lmdb::lmdb
+  sqlitewrapp:
+    libraries: [sqlitewrapp]
+    dependencies: [core]
+    requires:
+      - sqlite3::sqlite3
+  sraread:
+    libraries: [srareadx, sraread]
+    dependencies: [seqext]
+    requires: []
+  xmlwrapp:
+    libraries: [xmlreaders, xmlwrapp]
+    dependencies: [core]
+    requires:
+      - libxml2::libxml2
+      - libxslt::libxslt
+  web:
+    libraries: [xsoap_server, xsoap, ncbi_web, xcgi_redirect, xcgi, xhtml]
+    dependencies: [core]
+    requires: []