Building py-libxml2 fails (Ubuntu 22.04, unprivileged pkgsrc), because of the use of wrong headers (?) #150
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@algor512, which commit is that, please? |
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# ps 1.7.7 * `ps_cpu_times()` values are now correct on newer arm64 macOS. # ps 1.7.6 * `ps_name()` now does not fail in the rare case when `ps_cmdline()` returns an empty vector (#150). * `ps_system_cpu_times()` now returns CPU times divided by the HZ as reported by CLK_TCK, in-line with other OS's and the per-process version. (#144, @michaelwalshe).
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# evaluate 1.0.1
* Fix buglet revealed when by using `rlang::abort()` inside of `evaluate()`.
# evaluate 1.0.0
* Setting `ACTIONS_STEP_DEBUG=1` (as in a failing GHA workflow) will
automatically set `log_echo` and `log_warning` to `TRUE` (#175).
* evaluate works on R 3.6.0 once again.
* `evaluate()` improvements:
* Now terminates on the first error in a multi-expression input, i.e.
`1;stop('2');3` will no longer evaluate the third component. This
matches console behaviour more closely.
* Calls from conditions emitted by top-level code are automatically stripped
(#150).
* Result has a class (`evaluate_evaluation`/`list`) with a basic print method.
* Plots created before messages/warnings/errors are correctly captured (#28).
* Handler improvements:
* The default `value` handler now evaluates `print()` in a child of the
evaluation environment. This largely makes evaluate easier to test, but
should make defining S3 methods for print a little easier (#192).
* The `source` output handler is now passed the entire complete input
expression, not just the first component.
* `evalute(include_timing)` has been deprecated. I can't find any use of it on
GitHub, and it adds substantial code complexity for little gain.
* `is.value()` has been removed since it tests for an object that evaluate
never creates.
* New `local_reproducible_output()` helper that sets various options and env
vars to help ensure consistency of output across environments.
* `parse_all()` adds a `\n` to the end of every line, even the last one if it
didn't have one in the input. Additionally, it no longer has a default
method, which will generate better errors if you pass in something unexpected.
* New `trim_intermediate_plots()` drops intermediate plots to reveal the
complete/final plot (#206).
* `watchout()` is no longer exported; it's really an implementation detail that
should never have been leaked to the public interface.
# evaluate 0.24.0
* The `source` output handler can now take two arguments (the unparsed `src`
and the parsed `call`) and choose to affect the displayed source.
* The package now depends on R 4.0.0 in order to decrease our maintenance burden.
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This is a point release intended to clear up a couple of CVEs and apply point fixes that have been accumulating since 5.2.1 There are a few unresolved (but minor) memory leaks related to design issues in the API that still need to be resolved. Expect those fixes in the next release. Code Fixes ---------- * Fixes for CVE-2023-48161, CVE-2022-28506, * Address SF issue NetBSD#138 Documentation for obsolete utilities still installed * Address SF issue NetBSD#139: Typo in "LZW image data" page ("110_2 = 4_10") * Address SF issue NetBSD#140: Typo in "LZW image data" page ("LWZ") * Address SF issue NetBSD#141: Typo in "Bits and bytes" page ("filed") * Note as already fixed SF issue NetBSD#143: cannot compile under mingw * Address SF issue NetBSD#144: giflib-5.2.1 cannot be build on windows and other platforms using c89 * Address SF issue NetBSD#145: Remove manual pages installation for binaries that are not installed too * Address SF issue NetBSD#146: [PATCH] Limit installed man pages to binaries, move giflib to section 7 * Address SF issue NetBSD#147 [PATCH] Fixes to doc/whatsinagif/ content * Address SF issue NetBSD#148: heap Out of Bound Read in gif2rgb.c:298 DumpScreen2RGB * Declared no-info on SF issue NetBSD#150: There is a denial of service vulnerability in GIFLIB 5.2.1 * Declared Won't-fix on SF issue 149: Out of source builds no longer possible * Address SF issue NetBSD#151: A heap-buffer-overflow in gif2rgb.c:294:45 * Address SF issue #152: Fix some typos on the html documentation and man pages * Address SF issue #153: Fix segmentation faults due to non correct checking for args * Address SF issue #154: Recover the giffilter manual page * Address SF issue #155: Add gifsponge docs * Address SF issue #157: An OutofMemory-Exception or Memory Leak in gif2rgb * Address SF issue #158: There is a null pointer problem in gif2rgb * Address SF issue #159 A heap-buffer-overflow in GIFLIB5.2.1 DumpScreen2RGB() in gif2rgb.c:298:45 * Address SF issue #163: detected memory leaks in openbsd_reallocarray giflib/openbsd-reallocarray.c * Address SF issue #164: detected memory leaks in GifMakeMapObject giflib/gifalloc.c * Address SF issue #166: a read zero page leads segment fault in getarg.c and memory leaks in gif2rgb.c and gifmalloc.c * Address SF issue #167: Heap-Buffer Overflow during Image Saving in DumpScreen2RGB Function at Line 321 of gif2rgb.c
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# nloptr 2.1.1 This is a patch release to work around a bug in the CRAN checks. Specifically, one of the unit tests for the `isres()` algorithm was failing on some CRAN builds because convergence is stochastic with slightly different results even with the same fixed seed prior to calling the function. # nloptr 2.1.0 This release deprecates the default behavior of the inequality equations in any wrapper function which uses them. Currently, they are calibrated to be >= 0. This version allows for the equations to be consistent with the main `nloptr` function, which requires <= 0. In a future release, the default behavior will switch to assuming the calibration is <= 0, and eventually, the >= 0 behavior will be removed. It also includes a large number of safety and efficiency changes, and an expansion of the unit tests to 100% coverage for all files but one. The major changes include: * Reversed the direction of the inequality equations `hin` and `hinjac` in the wrapper functions which use them, bringing them into compliance with the main `nloptr` call. This addresses [Issue #148](astamm/nloptr#148); * Cleaned the Hock-Schittkowski problem no. 100, Hartmann 6-dimensional, and Powell exponential examples. This addresses [Issue #152](astamm/nloptr#152) and [Issue #156](astamm/nloptr#156); * Updated roxygen version; * Updated maintainer email; * Deal with NA returns from `parallel::detectCores()` (contributed by @jeroen in PR #150); * Setup rhub v2 checks; * Update cmake installation instructions on Mac with brew (#146); * Allow use of equality constraints with COBYLA (#135); * Replaced the unit testing framework of `testthat` with `tinytest` (See [Issue #136](astamm/nloptr#136)); * Brought coverage of `is.nloptr` to 100%. The only file not completely covered by unit tests is `nloptr.c`. The uncovered calls are error messages which get trapped by tests in R before the call gets to C; * Linted package for code correctness and consistency; * Updated vignette, DESCRIPTION, and NEWS; * Updated package website to use bootstrap 5; * Expanded unit tests: coverage now over 97% with no file below 90%; * Removed forcing `C++11`; * Added safety checks to C code; * Added many safety and efficiency enhancements to R code; * Most R code style made self-consistent; * Updated documentation and messages for accuracy and mathematical formatting * Updated Github actions; * Some bugfixes (e.g. in `isres` or the warning in `nl.grad`).
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(NEWS.md is not updated to 1.1.7) # s2 1.1.5 * fix compiler problem on Alpine 3.19.0 (#251) # s2 1.1.4 * Updated more tests to pass on a forthcoming waldo package update (#237). # s2 1.1.3 * Made a test less strict to pass tests on Alpine Linux (#218, #220). * Updated tests to pass on forthcoming waldo package update (@hadley, #226). * Updated vendored file modifications to suppress a multi-line comment warning on gcc (#214, #227). # s2 1.1.2 - Fixed test for `as.data.frame()` for `s2_cell()` to comply with new wk version and the latest release of R (#207). - Fix unary union of an empty multipolygon (#208). - Added `#include <cstdint>` to an Abseil header to fix compilation with gcc13 (#209, #210). - Update internal Abseil to 20220623.1 LTS (#213). # s2 1.1.1 - Fix new CRAN check warnings (#202, #203). # s2 1.1.0 - Fix for s2 build on Windows with R <= 3.6.x (#142) - Fix for s2 build on MacOS with multiple openssl versions (#142, #145, #146) - Fix for s2 build on 32-bit openssl (#143, #147) - Added `s2_convex_hull()` and `s2_convex_hull_agg()` (@spiry34, #150, #151, #163). - Added `max_distance` argument to `s2_closest_edges()`, making distance-constrained k-nearest neighbours possible (#125, #156, #162). - Added a spherical `s2_point_on_surface()` implementation for polygons (@kylebutts, #152, #161) - Added a `s2_cell_union()` vector class to represent cell coverings and operators to generate them from an s2 geography vector (e.g., `s2_covering_cell_ids()`). Cell unions are useful as compact representations of spherical geometry and can be used like a bounding box to determine a possible intersection with one or more geographies (#85, #94, #164). - Refactored the simple features compatability layer into a standalone code base for potential future use in a Python adaptation (#165). - Migrate input and output to non-deprecated wk package handlers and writers (#101, #165, #168). - Make `s2_union_agg()` more efficient using a recursive merge strategy (#103, #165). - Fix package build on Raspberry Pi (#169, #171). - Fix warning on clang14 when compiling with `-O0` (#167, #172). - Added `s2_prepared_dwithin()` and fixed `s2_dwithin_matrix()` such that it efficiently uses the index (#157, #174). - Updated `s2_lnglat()` and `s2_point()` to use `wk::xy()` (a record-style vctr) to represent point coordinates. This is much faster than the previous representation which relied on `list()` of external pointers (#181, #159). - Added arguments `planar` and `tessellate_tol_m` to `s2_as_text()`, `s2_as_binary()`. Use `planar = TRUE` and set `tessellate_tol_m` to the maximum error for your use-case to automatically subdivide edges to preserve or "straight" lines in Plate carree projection on import (#182). - Added arguments `planar` and `tessellate_tol_m` to `s2_geog_from_text()`, and `s2_geog_from_wkb()`. Use `planar = TRUE` and set `tessellate_tol_m` to the maximum error for your use-case to automatically subdivide edges to ensure or "straight" lines in Plate carree projection on export (#182). # s2 1.0.7 - Update the internal copy of s2geometry to use updated Abseil, fixing a compiler warning on gcc-11 (#79, #134).
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# wk 0.9.4 - Ensure package tests pass against sf 1.0-18 (#224, #225). # wk 0.9.3 - Ensure package compiles with `STRICT_R_HEADERS=1` (#222). # wk 0.9.2 - Add `wk_crs()` and `wk_set_crs()` methods for `bbox` (#213) - Fix wk_trans inconsistent meta flags handling (#217) - Ensure package builds on arm64 for Windows (#220) # wk 0.9.1 - Fix format strings/arguments for R-devel (#209). # wk 0.9.0 ## Breaking changes - The common well-known binary representation of POINT EMPTY (i.e., POINT (nan nan)) is now handled as POINT EMPTY allowing empty points to roundtrip through `wkb()` vectors (#196, #204). - `xy(NA, NA)` is now read as a null feature instead of POINT EMPTY. This preserves the invariant that null features can also be identified using `is.na()` (#205). - `xy(NaN, NaN)` is now read as POINT EMPTY and `is.na(xy(NaN, NaN))` now returns `FALSE`. This means that both EMPTY and null points can roundtrip through `xy()` (#205). ## Bugfixes and improvements - `wk_meta()` now contains a new column `is_empty`, which is `TRUE` for any feature that contains at least one non-empty coordinate. This allows more efficient detection of features with zero coordinates (#197, #199). - Updated PROJ data to use the latest pull of the database packaged with PROJ 9.3.0 (#201). - The wk package now compiles once again on gcc 4.8 (#203, #206). - Fixed `sfc_writer()` to correctly attach the `classes` attribute to sfc output with mixed geometry types (#195). - Function `sfc_writer()` now has an argument `promote_multi` to write any input as the MULTI variant. This makes it more likely that an input vector will be read as a single geometry type (#198). - The `wk_collection_filter()` now correctly increments the `part_id` when calling the child handler (@brownag, #194). # wk 0.8.0 * Added `wkb_to_hex()` (@anthonynorth, #183). * Implemented `vctrs::vec_proxy_equal()` for `wkb()` vctrs (@anthonynorth, #183). * Fixed `sfc_writer()`, which had returned NULL for some inputs (e.g., via `wk_collection()`) (@anthonynorth, #182, #186). * Added `wk_clockwise()` and `wk_counterclockwise()` to re-wind polygon rings (@anthonynorth, #188). * New replacement-function mode for `wk_coords<-()` for in-place modification of coordinates (@mdsumner, #187). * New function `wk_trans_explicit()` migrated from crs2crs (@mdsumner, #187). # wk 0.7.3 * Fix tests for updated waldo package (#178). # wk 0.7.2 * Fix use-after-free warnings. # wk 0.7.1 * Fix implicit reliance on error `as.data.frame.default()`, which no longer occurs in r-devel (#166). # wk 0.7.0 * Remove legacy headers that are no longer used by any downstream package (#146). * `validate_wk_wkt()` now errors for an object that does not inherit from 'wk_wkt' (#123, #146). * Added `wk_crs_projjson()` to get a JSON representation of a CRS object. To make lookup possible based on shortcut-style CRS objects (e.g., `"EPSG:4326"` or `4326`), added data objects `wk_proj_crs_view` and `wk_proj_crs_json` that contain cached versions of rendered PROJJSON based on the latest PROJ version (#147). * Added a `wk_crs_proj_definition()` method for `wk_crs_inherit()` (#136, #147). * Conversion to sf now uses the `sfc_writer()` for all wk classes, making conversions faster and fixing at least one issue with conversion of NA geometries to sf (#135). * `wk_plot()` now plots `NULL`/`NA` geometries and mixed geometry types more reliably (#142, #143, #149). * Exported EMPTY geometries to well-known text now include dimension (e.g., `POINT Z EMPTY`) (#141, #150). * Fixed bug where `wk_polygon()` doubled some points when the input contained closed rings (#134, #151). * Fixed bug where `wk_count()` exposed uninitialized values for empty input (#139, #153). * The `xy_writer()` now opportunistically avoids allocating vectors for Z or M values unless they are actually needed (#131, #154). * Added example WKT for all geometry types and dimensions plus helper `wk_example()` to access them and set various properties (#155). * Fixes warnings when compiling with `-Wstrict-prototypes` (#157, #158). * Removed `wk_chunk_map_feature()` in favour of using chunking strategies directly (#132, #159). * Optimized `wk_coords()` for `xy()` objects (#138, #160). * Added accessor methods for record-style vectors: `rct_xmin()`, `rct_xmax()`, `rct_ymin()`, `rct_ymax()`, `rct_width()`, `rct_height()`, `crc_center()`, `crc_x()`, `crc_y()`, `crc_r()`, `xy_x()`, `xy_y()`, `xy_z()`, and `xy_m()` (#144, #161). * Added rectangle operators `rct_intersects()`, `rct_contains()`, and `rct_intersection()` (#161). # wk 0.6.0 * Fixed `wk_affine_rescale()` to apply the translate and scale operations in the correct order (#94). * Add `wk_handle_slice()` and `wk_chunk_map_feature()` to support a chunk + apply workflow when working with large vectors (#101, #107). * C and R code was rewritten to avoid materializing ALTREP vectors (#103, #109). * Added a `wk_crs_proj_definition()` generic for foreign CRS objects (#110, #112). * Added `wk_crs_longlat()` helper to help promote authority-compliant CRS choices (#112). * Added `wk_is_geodesic()`, `wk_set_geodesic()`, and argument `geodesic` in `wkt()` and `wkb()` as a flag for objects whose edges must be interpolated along a spherical/ellipsoidal trajectory (#112). * Added `sf::st_geometry()` and `sf::st_sfc()` methods for wk geometry vectors for better integration with sf (#113, #114). * Refactored well-known text parser to be more reusable and faster (#115, #104). * Minor performance enhancement for `is.na()` and `validate_wk_wkb()` when called on a very long `wkb()` vector (#117). * Fixed issue with `validate_wk_wkb()` and `validate_wk_wkt()`, which failed for most valid objects (#119). * Added `wk_envelope()` and `wk_envelope_handler()` to compute feature-wise bounding boxes (#120, #122). * Fixed headers and tests to pass on big endian systems (#105, #122). * Incorporated the geodesic attribute into vctrs methods, data frame columns, and bbox/envelope calculation (#124, #125). * Fix `as_xy()` for nested data frames and geodesic objects (#126, #128). * Remove deprecated `wkb_problems()`, `wkt_problems()`, `wkb_format()`, and `wkt_format()` (#129). * `wk_plot()` is now an S3 generic (#130). # wk 0.5.0 * Fixed bugs relating to the behaviour of wk classes as vectors (#64, #65, #67, #70). * `crc()` objects are now correctly exported as polygons with a closed loop (#66, #70). * Added `wk_vertices()` and `wk_coords()` to extract individual coordinate values from geometries with optional identifying information. For advanced users, the `wk_vertex_filter()` can be used as part of a pipeline to export coordinates as point geometries to another handler (#69, #71). * Added `wk_flatten()` to extract geometries from collections. For advanced users, the `wk_flatten_filter()` can be used as part of a pipeline (#75, #78). * `options("max.print")` is now respected by all vector classes (#72, #74). * Moved implementation of plot methods from wkutils to wk to simplify the dependency structure of both packages (#80, #76). * Added `wk_polygon()`, `wk_linestring()`, and `wk_collection()` to construct polygons, lines, and collections. For advanced users, `wk_polygon_filter()`, `wk_linestring_filter()`, and `wk_collection_filter()` can be used as part of a pipeline (#77, #84). * Added a C-level transform struct that can be used to simplify the the common pattern of transforming coordinates. These structs can be created by other packages; however, the `wk_trans_affine()` and `wk_trans_set()` transforms are also built using this feature. These are run using the new `wk_transform()` function and power the new `wk_set_z()`, `wk_set_m()`, `wk_drop_z()`, `wk_drop_m()`, functions (#87, #88, #89). # wk 0.4.1 * Fix LTO and MacOS 3.6.2 check errors (#61). # wk 0.4.0 * Removed `wksxp()` in favour of improved `sf::st_sfc()` support (#21). * Rewrite existing readers, writers, and handlers, using a new C API (#13). * Use new C API in favour of header-only approach for all wk functions (#19, #22). * Use cpp11 to manage safe use of callables that may longjmp from C++. * Vector classes now propagate `attr(, "crs")`, and check that operations that involve more than one vector have compatable CRS objects as determined by `wk_crs_equal()`. * Added an R-level framework for other packages to implement wk readers and handlers: `wk_handle()`, `wk_translate()`, and `wk_writer()` (#37). * Added a native reader and writer for `sf::st_sfc()` objects and implemented R-level generics for sfc, sfg, sf, and bbox objects (#28, #29, #38, #45). * Implement `crc()` vector class to represent circles (#40). * Added a 2D cartesian bounding box handler (`wk_bbox()`) (#42). * Refactored unit tests reflecting use of the new API and for improved test coverage (#44, #45, #46). * Added `wk_meta()`, `wk_vector_meta()`, and `wk_count()` to inspect properties of vectors (#53). * Modified all internal handlers such that they work with vectors of unknown length (#54). # wk 0.3.4 * Fixed reference to `wkutils::plot.wk_wksxp()`, which no longer exists. # wk 0.3.3 * Fixed WKB import of ZM geometries that do not use EWKB. * Added `xy()`, `xyz()`, `xym()` and `xyzm()` classes to efficiently store point geometries. * Added the `rct()` vector class to efficiently store two-dimensional rectangles. * Fixed the CRAN check failure caused by a circular dependency with the wkutils package. * Added S3 methods to coerce sf objects to and from `wkt()`, `wkb()` and `wksxp()`. # wk 0.3.2 * Fixed EWKB output for collections and multi-geometries that included SRID (#3). * Fixed CRAN check errors related to exception handling on MacOS/R 3.6.2. # wk 0.3.1 * Added a `NEWS.md` file to track changes to the package.
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2.3.0 (2024-12-05) Minor Enhancements * Simplify checking if an archive type is enabled (#149) * Memoize relative_path attribute of archive pages (#153) * Memoize date attribute of date-type archive pages (#154) * Allow creating slugs for emoji characters. (#129) * Use Liquid drop to expose attributes to templates (#158) Bug Fixes * Return unless 'jekyll-archives' config is a Hash (#139) * Include LICENSE in built gem (#180) Internal Refactors * Initialize Archives generator with a hash (#135) * Remove support for legacy Jekyll versions (#136) * Read-in site's tags and categories attributes (#137) * Use private helper to append enabled archive type (#150) * Access nested Hash values with Hash#dig (#151) * Generate custom post_attr_hash with private helper (#152) Development Fixes * Migrate CI to GitHub Actions (#177) * Add style_check job to CI workflow (#178) * Add workflow to release gem via GitHub Actions (#179) Documentation Fixes * Substitute 'gems' with 'plugins' (#143)
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On Ubuntu 22.04, the installation crashes when the libxml2-dev package is installed. Removing it
makes the installation succeed. I noticed that in the former case the compilation log contains the
following lines:
While in the latter case it contains
As you can see, in the former case it contains
-I/usr/include/libxml2and it presumabely makes itfail. I have the line
PREFER_PKGSRC=yesin my mk.conf.The text was updated successfully, but these errors were encountered: