| Age | Commit message (Collapse) | Author | Files | Lines |
|---|
|
0.9.0:
Unknown changes
|
|
|
|
Version 2.2.0
Changes
Data elements with a VR of AT must now be set with values acceptable to Tag(), and are always stored as a BaseTag. Previously, any Python type could be set.
BaseTag.__eq__() returns False rather than raising an exception when the operand cannot be converted to BaseTag
DA.__str__(), DT.__str__() and TM.__str__() return valid DICOM strings instead of the formatted date and time representations
If comparing FileDataset instances, the file metadata is now ignored. This makes it possible to compare a FileDataset object with a Dataset object.
rle_encode_frame() is deprecated and will be removed in v3.0, use compress() or RLELosslessEncoder instead.
read_file() is deprecated and will be removed in v3.0, use dcmread() instead.
write_file() is deprecated and will be removed in v3.0, use dcmwrite() instead.
Data dictionaries updated to version 2021b of the DICOM Standard
Dataset no longer inherits from dict
Enhancements
Added a command-line interface for pydicom. Current subcommands are:
show: display all or part of a DICOM file
codify to produce Python code for writing files or sequence items from scratch.
Please see the Command-line Interface Guide for examples and details of all the options for each command.
A field containing an invalid number of bytes will result in a warning instead of an exception when convert_wrong_length_to_UN is set to True.
Private tags known via the private dictionary will now get the configured VR if read from a dataset instead of UN
While reading explicit VR, a switch to implicit VR will be silently attempted if the VR bytes are not valid VR characters, and config option assume_implicit_vr_switch is True (default)
New functionality to help with correct formatting of decimal strings (DS)
Added is_valid_ds() to check whether a string is valid as a DICOM decimal string and format_number_as_ds() to format a given float or Decimal as a DS while retaining the highest possible level of precision
If enforce_valid_values is set to True, all DS objects created will be checked for the validity of their string representations.
Added optional auto_format parameter to the init methods of DSfloat and DSdecimal and the DS() factory function to allow explicitly requesting automatic formatting of the string representations of these objects when they are constructed.
Added methods to construct PersonName objects from individual components of names (family_name, given_name, etc.). See from_named_components() and from_named_components_veterinary().
Added support for downloading the large test files with the requests package in addition to urllib.request
Ensured convert_color_space() uses 32-bit floats for calculation, added per_frame flag to allow frame-by-frame processing and improved the speed by ~20-60%
Optimisations for RLE encoding using pydicom (~40% faster).
Added support for faster decoding (~4-5x) and encoding (~20x) of RLE Lossless Pixel Data via the pylibjpeg-rle plugin
Added Dataset.compress() function for compressing uncompressed pixel data using a given encoding format as specified by a UID. Only RLE Lossless is currently supported
Added encoders module and the following encoders:
RLELosslessEncoder with ‘pydicom’, ‘pylibjpeg’ and ‘gdcm’ plugins
Added read parameter to get_testdata_file() to allow reading and returning the corresponding dataset
Handle decoded RLE segments with padding
Add option to JSON functions to suppress exception and continue
Allow searching FileSet s for a list of elements
Added hash function to SR Code
Fixes
Fixed pickling a Dataset instance with sequences after the sequence had been read
Fixed JSON export of numeric values
Fixed handling of sequences of unknown length that switch to implicit encoding, and sequences with VR UN
Do not load external data sources until needed - fixes problems with standard workflow if setuptools are not installed
Fixed empty PN elements read from file being str rather than PersonName
Fixed handling of JPEG (10918-1) images compressed using RGB colourspace rather than YBR with the Pillow pixel data handler
Allow to deepcopy a ~pydicom.dataset.FileDataset object
Fixed elements with a VR of OL, OD and OV not being set correctly when an encoded backslash was part of the element value
Fixed expansion of linear segments with floating point steps in segmented LUTs
Fixed handling of code extensions with person name component delimiter
Fixed bug decoding RBG jpg with APP14 marker due to change in Pillow
Fixed decoding for FloatPixelData and DoubleFloatPixelData via pydicom.pixel_data_handlers.numpy_handler
Version 2.1.1
Fixes
Remove py.typed
Fix ImportError with Python 3.6.0
Fix converting Sequences with Bulk Data when loading from JSON
Version 2.1.0
Changelog
Dropped support for Python 3.5 (only Python 3.6+ supported)
Enhancements
Large testing data is no longer distributed within the pydicom package with the aim to reduce the package download size. These test files will download on-the-fly whenever either the tests are run, or should the file(s) be requested via the data manager functions. For example:
To download all files and get their paths on disk you can run pydicom.data.get_testdata_files().
To download an individual file and get its path on disk you can use pydicom.data.get_testdata_file(), e.g. for RG1_UNCI.dcm use pydicom.data.get_testdata_file("RG1_UNCI.dcm")
Added a new pixel data handler based on pylibjpeg which supports all (non-retired) JPEG transfer syntaxes
Added apply_rescale() alias
Added apply_voi() and apply_windowing()
Added prefer_lut keyword parameter to apply_voi_lut() and handle empty VOI LUT module elements
Added ability to register external data sources for use with the functions in pydicom.data
__contains__, __next__ and __iter__ implementations added to PersonName
Added convenience constants for the MPEG transfer syntaxes to pydicom.uid
Added support for decoding Waveform Data:
Added pydicom.waveforms module and generate_multiplex() and multiplex_array() functions.
Added Dataset.waveform_array() which returns an ndarray for the multiplex group at index within a Waveform Sequence element.
When JPEG 2000 image data is unsigned and the Pixel Representation is 1 the image data is converted to signed
Added keyword property for the new UID keywords in version 2020d of the DICOM Standard
Added testing of the variable names used when setting Dataset attributes and INVALID_KEYWORD_BEHAVIOR config option to allow customizing the behavior when a camel case variable name is used that isn’t a known element keyword
Added INVALID_KEY_BEHAVIOR config option to allow customizing the behavior when an invalid key is used with the Dataset in operator
Implemented full support (loading, accessing, modifying, writing) of DICOM File-sets and their DICOMDIR files via the FileSet class
Added AllTransferSyntaxes
Added option to turn on pydicom future breaking behavior to allow user code to check itself against the next major version release. Set environment variable “PYDICOM_FUTURE” to “True” or call future_behavior()
Added another signature to the bulk_data_uri_handler in from_json to allow for the communication of not just the URI but also the tag and VR to the handler. Previous handlers will work as expected, new signature handlers will get the additional information.
pack_bits() can now be used with 2D or 3D input arrays and will pad the packed data to even length by default.
Elements with the IS VR accept float strings that are convertible to integers without loss, e.g. “1.0”
Added encapsulate_extended() function for use when an Extended Offset Table is required
Changes
Reading and adding unknown non-private tags now does not raise an exception per default, only when enforce_valid_values is set
Data dictionaries updated to version 2020d of the DICOM Standard
Updated a handful of the SOP Class variable names in _storage_sopclass_uids to use the new UID keywords. Variables with Multiframe in them become MultiFrame, those with and in them become And, and DICOSQuadrupoleResonanceQRStorage becomes DICOSQuadrupoleResonanceStorage.
The following UID constants are deprecated and will be removed in v2.2:
JPEGBaseline: use JPEGBaseline8Bit
JPEGExtended: use JPEGExtended12Bit
JPEGLossless: use JPEGLosslessSV1
JPEGLSLossy: use JPEGLSNearLossless
JPEG2000MultiComponentLossless: use JPEG2000MCLossless
JPEG2000MultiComponent: use JPEG2000MC
In v3.0 the value for JPEGLossless will change from 1.2.840.10008.1.2.4.70 to 1.2.840.10008.1.2.4.57 to match its UID keyword
The following lists of UIDs are deprecated and will be removed in v2.2:
JPEGLossyCompressedPixelTransferSyntaxes: use JPEGTransferSyntaxes
JPEGLSSupportedCompressedPixelTransferSyntaxes: use JPEGLSTransferSyntaxes
JPEG2000CompressedPixelTransferSyntaxes: use JPEG2000TransferSyntaxes
RLECompressedLosslessSyntaxes: use RLETransferSyntaxes
UncompressedPixelTransferSyntaxes: use UncompressedTransferSyntaxes
PILSupportedCompressedPixelTransferSyntaxes
DicomDir and the dicomdir module are deprecated and will be removed in v3.0. Use FileSet instead
pydicom.overlay_data_handlers is deprecated, use pydicom.overlays instead
Removed transfer syntax limitations when converting overlays to an ndarray
The overlay_data_handlers config option is deprecated, the default handler will always be used.
Fixes
Dataset.copy() now works as expected
Optimistically parse undefined length non-SQ data as if it’s encapsulated pixel data to avoid erroring out on embedded sequence delimiter
Fixed get_testdata_file() and get_testdata_files() raising an exception if no network connection is available
Fixed GDCM < v2.8.8 not returning the pixel array for datasets not read from a file-like
Raise TypeError if dcmread() or dcmwrite() is called with wrong argument
Gracefully handle empty Specific Character Set
Fixed empty ambiguous VR elements raising an exception
Allow apply_voi_lut() to apply VOI lookup to an input float array
Fixed Dataset.setdefault() not adding working correctly when the default value is None and not adding private elements when enforce_valid_values is True
Version 2.0.0
Changelog
Dropped support for Python 2 (only Python 3.5+ supported)
Changes to Dataset.file_meta
file_meta now shown by default in dataset str or repr output; pydicom.config.show_file_meta can be set False to restore previous behavior
new FileMetaDataset class that accepts only group 2 data elements
Deprecation warning given unless Dataset.file_meta set with a FileMetaDataset object (in pydicom 3, it will be required)
Old PersonName class removed; PersonName3 renamed to PersonName. Classes PersonNameUnicode and PersonName3 are aliased to PersonName but are deprecated and will be removed in version 2.1
dataelem.isMultiValue (previously deprecated) has been removed. Use dataelem.DataElement.VM instead.
Enhancements
Allow PathLike objects for filename argument in dcmread, dcmwrite and Dataset.save_as
Deflate post-file meta information data when writing a dataset with the Deflated Explicit VR Little Endian transfer syntax UID
Added config.replace_un_with_known_vr to be able to switch off automatic VR conversion for known tags with VR “UN”
Added config.use_DS_numpy and config.use_IS_numpy to have multi-valued data elements with VR of DS or IS return a numpy array
Fixes
Fixed reading of datasets with an empty Specific Character Set tag
Fixed failure to parse dataset with an empty LUT Descriptor or Red/Green/Blue Palette Color LUT Descriptor element.
Made Dataset.save_as a wrapper for dcmwrite
Removed 1.2.840.10008.1.2.4.70 - JPEG Lossless (Process 14, SV1) from the Pillow pixel data handler as Pillow doesn’t support JPEG Lossless.
Fixed error when writing elements with a VR of OF
Fixed improper conversion when reading elements with a VR of OF
Fixed apply_voi_lut() and apply_modality_lut() not handling (0028,3006) LUT Data with a VR of OW
Fixed access to private creator tag in raw datasets
Fixed description of newly added known private tag
Fixed update of private blocks after deleting private creator
Fixed bug in updating pydicom.config.use_DS_Decimal flag in DS_decimal()
|
|
|
|
Version 0.6.7
- Added :meth:`Image.image_add() <wand.image.Image.image_add>` method.
- Added :meth:`Image.image_get() <wand.image.Image.image_get>` method.
- Added :meth:`Image.image_remove() <wand.image.Image.image_remove>` method.
- Added :meth:`Image.image_set() <wand.image.Image.image_set>` method.
- Added :meth:`Image.image_swap() <wand.image.Image.image_swap>` method.
- Fixed sub-image extraction on read. [:issue:`532`]
- Fixed :attr:`~wand.image.BaseImage.background_color` attribute when image was not read.
- [DOC] Completed :doc:`Distortion <./guide/distortion>` guide. [:issue:`534`]
- [DOC] Added :doc:`Morphology <./guide/morphology>` guide.
|
|
yaml-cpp-0.7.0
Bazel support
CMake improvements
Adopts many modern C++ syntaxes
Bug fixes
|
|
Quick fix for "make patch" failure.
|
|
|
|
3.1.1:
* Bugfixes
* Support Python 3.9
* Drop support for EOL Python 3.5
|
|
0.17.15:
- fix issue 397, insert comment before key when a comment between key and value exists
|
|
10.8.0
Added
Added Panel.subtitle
Added Panel.subtitle_align
Added rich.json.JSON
Added rich.print_json and Console.print_json
Fixed
Fixed a bug where calling rich.reconfigure within a pytest_configure hook would lead to a crash
Fixed highlight not being passed through options https://github.com/willmcgugan/rich/issues/1404
|
|
IPython 7.27 is a minor release that fixes a couple of issues and compatibility.
- Add support for GTK4
- Add support for Qt6
- Fix an issue with pip magic on windows
|
|
These bash scripts are installed unconditionally on Linux, but not
on any other operating systems.
|
|
Instead, drop them from USER_EMUL on BSD platforms, since these
user-mode qemu targets were removed only for BSD [0]; they still
remain on Linux.
[0] https://git.qemu.org/?p=qemu.git;a=commit;h=f8ce39701b5be032fb3f9c05e8adb4055f70eec2
|
|
Updates for libxtend and biolibc API changes
|
|
Updates for libxtend and bioloibc API changes
|
|
Updates for libxtend and biolibc API changes
|
|
Updates for libxtend and biolibc API changes
Clean up and minor bug fixes
|
|
|
|
|
|
|
|
The defaults for mke2fs now call for 256 byte inodes for all file systems (with
the exception of file systems for the GNU Hurd, which only supports 128 byte
inodes). Creating non-Hurd file systems with 128 byte inodes will trigger a
warning message to make sure users are aware of the potential problems of using
small/legacy inode sizes.
The bigalloc feature is now considered supported if the cluster size no more
than 16 times the block size. So the mke2fs program has been changes to only
warn if the cluster size is larger than that.
Fixes:
- E2fsck now checks to make sure directory entries do not reference internal
quota inodes.
- E2image now includes the quota inodes when creating file system image, since
they are part of the file system metadata.
- E2fsck now properly accounts the quota usage of the project quota file.
- Fix a regression introduced in 1.64.3 where attempting to create a file system
image using mke2fs into a non-existent file would fail.
- Fix mke2fs to correctly create Posix ACL's on big-endian systems when copying
files from a directory hierarchy.
- Updated and clarified the resize2fs man pages.
|
|
Major API overhaul
New classes for FASTA and FASTQ
Generate accessor and mutator functions for all classes
Generate man pages for all functions and macros
Export delimiter-separated-value class to libxtend
|
|
Major API overhaul
Generate accessor and mutator functions
Generate man pages for all functions
Import delimiter-separated-value class from biolibc
|
|
|
|
I moved from macOS to Fedora, and everything using OpenGL or audio in pkgsrc is
broken on Fedora (incompatible, much older Mesa in pkgsrc, PulseAudio from
pkgsrc not supporting PipeWire, etc.) so I can no longer update and test this
package. This package unfortunately ticks both, OpenGL and audio.
|
|
|
|
3.4.0: 2021-08-26
Improvements
* test: Added missing Red Datasets availability check.
[GitHub#87][Reported by Mamoru TASAKA]
Thanks
* Mamoru TASAKA
3.3.9: 2021-08-26
Improvements
* msginit: Made Red Datasets dependency optional.
[GitHub:red-datatools/red-datasets#105][Suggested by Mamoru TASAKA]
|
|
correct, but X only seems to search its base directory for app-defaults
and xfm immediately errors if they can't be opened.
|
|
Reported by Chavdar Ivanov on pkgsrc-users.
|
|
This allows RELRO to be used when building imake packages.
XXX: I'm not certain if this is the right place, but this already seems
to be cargo-culted in individual package Makefiles...
|
|
|
|
Bump PKGREVISION.
|
|
Added math/R-hexbin version 1.28.2
Added devel/R-R.methodsS3 version 1.8.1
Added devel/R-R.utils version 2.10.1
Updated graphics/R-latex2exp to 0.5.0
Updated math/R-compositions to 2.0.2
Added devel/R-R.oo version 1.24.0
Added math/R-sets version 1.0.18
Added math/R-stat.extend version 0.1.4
Updated graphics/R-ggplot2 to 3.3.5
Updated graphics/R-ggtern to 3.3.5
|
|
ggtern 3.3.5
----------------------------------------------------------------
ggtern 3.3.0
----------------------------------------------------------------
* Fixed broken compatability with ggplot2 3.3.0
ggtern 3.1.1
----------------------------------------------------------------
* Bug fix within the stat density tern funtion
|
|
# ggplot2 3.3.5
This is a very small release focusing on fixing a couple of untenable issues
that surfaced with the 3.3.4 release
* Revert changes made in #4434 (apply transform to intercept in `geom_abline()`)
as it introduced undesirable issues far worse than the bug it fixed
(@thomasp85, #4514)
* Fixes an issue in `ggsave()` when producing emf/wmf files (@yutannihilation,
#4521)
* Warn when grDevices specific arguments are passed to ragg devices (@thomasp85,
#4524)
* Fix an issue where `coord_sf()` was reporting that it is non-linear
even when data is provided in projected coordinates (@clauswilke, #4527)
# ggplot2 3.3.4
This is a larger patch release fixing a huge number of bugs and introduces a
small selection of feature refinements.
## Features
* Alt-text can now be added to a plot using the `alt` label, i.e
`+ labs(alt = ...)`. Currently this alt text is not automatically propagated,
but we plan to integrate into Shiny, RMarkdown, and other tools in the future.
(@thomasp85, #4477)
* Add support for the BrailleR package for creating descriptions of the plot
when rendered (@thomasp85, #4459)
* `coord_sf()` now has an argument `default_crs` that specifies the coordinate
reference system (CRS) for non-sf layers and scale/coord limits. This argument
defaults to `NULL`, which means non-sf layers are assumed to be in projected
coordinates, as in prior ggplot2 versions. Setting `default_crs = sf::st_crs(4326)`
provides a simple way to interpret x and y positions as longitude and latitude,
regardless of the CRS used by `coord_sf()`. Authors of extension packages
implementing `stat_sf()`-like functionality are encouraged to look at the source
code of `stat_sf()`'s `compute_group()` function to see how to provide scale-limit
hints to `coord_sf()` (@clauswilke, #3659).
* `ggsave()` now uses ragg to render raster output if ragg is available. It also
handles custom devices that sets a default unit (e.g. `ragg::agg_png`)
correctly (@thomasp85, #4388)
* `ggsave()` now returns the saved file location invisibly (#3379, @eliocamp).
Note that, as a side effect, an unofficial hack `<ggplot object> + ggsave()`
no longer works (#4513).
* The scale arguments `limits`, `breaks`, `minor_breaks`, `labels`, `rescaler`
and `oob` now accept purrr style lambda notation (@teunbrand, #4427). The same
is true for `as_labeller()` (and therefore also `labeller()`)
(@netique, #4188).
* Manual scales now allow named vectors passed to `values` to contain fewer
elements than existing in the data. Elements not present in values will be set
to `NA` (@thomasp85, #3451)
* Date and datetime position scales support out-of-bounds (oob) arguments to
control how limits affect data outside those limits (@teunbrand, #4199).
## Fixes
* Fix a bug that `after_stat()` and `after_scale()` cannot refer to aesthetics
if it's specified in the plot-global mapping (@yutannihilation, #4260).
* Fix bug in `annotate_logticks()` that would cause an error when used together
with `coord_flip()` (@thomasp85, #3954)
* Fix a bug in `geom_abline()` that resulted in `intercept` not being subjected
to the transformation of the y scale (@thomasp85, #3741)
* Extent the range of the line created by `geom_abline()` so that line ending
is not visible for large linewidths (@thomasp85, #4024)
* Fix bug in `geom_dotplot()` where dots would be positioned wrong with
`stackgroups = TRUE` (@thomasp85, #1745)
* Fix calculation of confidence interval for locfit smoothing in `geom_smooth()`
(@topepo, #3806)
* Fix bug in `geom_text()` where `"outward"` and `"inward"` justification for
some `angle` values was reversed (@aphalo, #4169, #4447)
* `ggsave()` now sets the default background to match the fill value of the
`plot.background` theme element (@karawoo, #4057)
* It is now deprecated to specify `guides(<scale> = FALSE)` or
`scale_*(guide = FALSE)` to remove a guide. Please use
`guides(<scale> = "none")` or `scale_*(guide = "none")` instead
(@yutannihilation, #4094).
* Fix a bug in `guide_bins()` where keys would disappear if the guide was
reversed (@thomasp85, #4210)
* Fix bug in `guide_coloursteps()` that would repeat the terminal bins if the
breaks coincided with the limits of the scale (@thomasp85, #4019)
* Make sure that default labels from default mappings doesn't overwrite default
labels from explicit mappings (@thomasp85, #2406)
* Fix bug in `labeller()` where parsing was turned off if `.multiline = FALSE`
(@thomasp85, #4084)
* Make sure `label_bquote()` has access to the calling environment when
evaluating the labels (@thomasp85, #4141)
* Fix a bug in the layer implementation that introduced a new state after the
first render which could lead to a different look when rendered the second
time (@thomasp85, #4204)
* Fix a bug in legend justification where justification was lost of the legend
dimensions exceeded the available size (@thomasp85, #3635)
* Fix a bug in `position_dodge2()` where `NA` values in thee data would cause an
error (@thomasp85, #2905)
* Make sure `position_jitter()` creates the same jittering independent of
whether it is called by name or with constructor (@thomasp85, #2507)
* Fix a bug in `position_jitter()` where different jitters would be applied to
different position aesthetics of the same axis (@thomasp85, #2941)
* Fix a bug in `qplot()` when supplying `c(NA, NA)` as axis limits
(@thomasp85, #4027)
* Remove cross-inheritance of default discrete colour/fill scales and check the
type and aesthetic of function output if `type` is a function
(@thomasp85, #4149)
* Fix bug in `scale_[x|y]_date()` where custom breaks functions that resulted in
fracional dates would get misaligned (@thomasp85, #3965)
* Fix bug in `scale_[x|y]_datetime()` where a specified timezone would be
ignored by the scale (@thomasp85, #4007)
* Fix issue in `sec_axis()` that would throw warnings in the absence of any
secondary breaks (@thomasp85, #4368)
* `stat_bin()`'s computed variable `width` is now documented (#3522).
* `stat_count()` now computes width based on the full dataset instead of per
group (@thomasp85, #2047)
* Extended `stat_ecdf()` to calculate the cdf from either x or y instead from y
only (@jgjl, #4005)
* Fix a bug in `stat_summary_bin()` where one more than the requested number of
bins would be created (@thomasp85, #3824)
* Only drop groups in `stat_ydensity()` when there are fewer than two data
points and throw a warning (@andrewwbutler, #4111).
* Fixed a bug in strip assembly when theme has `strip.text = element_blank()`
and plots are faceted with multi-layered strips (@teunbrand, #4384).
* Using `theme(aspect.ratio = ...)` together with free space in `facet_grid()`
now crrectly throws an error (@thomasp85, #3834)
* Fixed a bug in `labeller()` so that `.default` is passed to `as_labeller()`
when labellers are specified by naming faceting variables. (@waltersom, #4031)
* Updated style for example code (@rjake, #4092)
* ggplot2 now requires R >= 3.3 (#4247).
* ggplot2 now uses `rlang::check_installed()` to check if a suggested package is
installed, which will offer to install the package before continuing (#4375,
@malcolmbarrett)
* Improved error with hint when piping a `ggplot` object into a facet function
(#4379, @mitchelloharawild).
|
|
Highest Density Regions are the smallest set in the support of a
probability distribution with the specified coverage probability.
'HDRs' may contain disjoint intervals, but can be calculated
efficiently using iterative methods. One can similarly construct
optimal (i.e., shortest) confidence intervals for some basic
inferential problems, including for population means, variances, or
proportion parameters.
|
|
|
|
26 Aug 2021, PHP 7.3.30
- Phar:
. Fixed bug #81211: Symlinks are followed when creating PHAR archive (cmb)
|
|
Data structures and basic operations for ordinary sets,
generalizations such as fuzzy sets, multisets, and fuzzy multisets,
customizable sets, and intervals.
|
|
|
|
26 Aug 2021, PHP 8.0.10
- Core:
. Fixed bug #72595 (php_output_handler_append illegal write access). (cmb)
. Fixed bug #66719 (Weird behaviour when using get_called_class() with
call_user_func()). (Nikita)
. Fixed bug #81305 (Built-in Webserver Drops Requests With "Upgrade" Header).
(cmb)
- BCMath:
. Fixed bug #78238 (BCMath returns "-0"). (cmb)
- CGI:
. Fixed bug #80849 (HTTP Status header truncation). (cmb)
- Date:
. Fixed bug #64975 (Error parsing when AM/PM not at the end). (Derick)
. Fixed bug #78984 (DateTimeZone accepting invalid UTC timezones). (Derick)
. Fixed bug #79580 (date_create_from_format misses leap year). (Derick)
. Fixed bug #80409 (DateTime::modify() loses time with 'weekday' parameter).
(Derick)
- GD:
. Fixed bug #51498 (imagefilledellipse does not work for large circles). (cmb)
- MySQLi:
. Fixed bug #74544 (Integer overflow in mysqli_real_escape_string()). (cmb,
johannes)
- Opcache:
. Fixed bug #81225 (Wrong result with pow operator with JIT enabled).
(Dmitry)
. Fixed bug #81249 (Intermittent property assignment failure with JIT
enabled). (Dmitry)
. Fixed bug #81206 (Multiple PHP processes crash with JIT enabled). (cmb,
Nikita)
. Fixed bug #81272 (Segfault in var[] after array_slice with JIT). (Nikita)
. Fixed Bug #81255 (Memory leak in PHPUnit with functional JIT). (Dmitry)
. Fixed Bug #80959 (infinite loop in building cfg during JIT compilation)
(Nikita, Dmitry)
. Fixed bug #81226 (Integer overflow behavior is different with JIT
enabled). (Dmitry)
- OpenSSL:
. Fixed bug #81327 (Error build openssl extension on php 7.4.22). (cmb)
- PDO_ODBC:
. Fixed bug #81252 (PDO_ODBC doesn't account for SQL_NO_TOTAL). (cmb)
- Phar:
. Fixed bug #81211: Symlinks are followed when creating PHAR archive (cmb)
- Shmop:
. Fixed bug #81283 (shmop can't read beyond 2147483647 bytes). (cmb, Nikita)
- SimpleXML:
. Fixed bug #81325 (Segfault in zif_simplexml_import_dom). (remi)
- Standard:
. Fixed bug #72146 (Integer overflow on substr_replace). (cmb)
. Fixed bug #81265 (getimagesize returns 0 for 256px ICO images).
(George Dietrich)
. Fixed bug #74960 (Heap buffer overflow via str_repeat). (cmb, Dmitry)
- Streams:
. Fixed bug #81294 (Segfault when removing a filter). (cmb)
|
|
|
|
26 Aug 2021, PHP 7.4.23
- Core:
. Fixed bug #72595 (php_output_handler_append illegal write access). (cmb)
. Fixed bug #66719 (Weird behaviour when using get_called_class() with
call_user_func()). (Nikita)
. Fixed bug #81305 (Built-in Webserver Drops Requests With "Upgrade" Header).
(cmb)
- BCMath:
. Fixed bug #78238 (BCMath returns "-0"). (cmb)
- CGI:
. Fixed bug #80849 (HTTP Status header truncation). (cmb)
- GD:
. Fixed bug #51498 (imagefilledellipse does not work for large circles). (cmb)
- MySQLi:
. Fixed bug #74544 (Integer overflow in mysqli_real_escape_string()). (cmb,
johannes)
- OpenSSL:
. Fixed bug #81327 (Error build openssl extension on php 7.4.22). (cmb)
- PDO_ODBC:
. Fixed bug #81252 (PDO_ODBC doesn't account for SQL_NO_TOTAL). (cmb)
- Phar:
. Fixed bug #81211: Symlinks are followed when creating PHAR archive.(cmb)
- Shmop:
. Fixed bug #81283 (shmop can't read beyond 2147483647 bytes). (cmb, Nikita)
- Standard:
. Fixed bug #72146 (Integer overflow on substr_replace). (cmb)
. Fixed bug #81265 (getimagesize returns 0 for 256px ICO images).
(George Dietrich)
. Fixed bug #74960 (Heap buffer overflow via str_repeat). (cmb, Dmitry)
- Streams:
. Fixed bug #81294 (Segfault when removing a filter). (cmb)
|
|
Methods and classes for object-oriented programming in R with or
without references. Large effort has been made on making definition
of methods as simple as possible with a minimum of maintenance for
package developers. The package has been developed since 2001 and is
now considered very stable. This is a cross-platform package
implemented in pure R that defines standard S3 classes without any
tricks.
|
|
Version 2.0-1.9001
Minor changes / Bugfixes:
* functions that do not work with sticky classes are now wrapped
(e.g. `anova()`)
Version 2.0-1.9000
Major change: sticky classes!
Now objects of compositional classes do not miss their class
when subsetting. For example, if `x` is an "acomp" object,
x[1:2,] will also be an "acomp" object. Selection of columns work
as well, but it is a bit more tricky. Check ?`[.acomp` for
details. You can get skip this behaviour by setting
setStickyClassOption(FALSE). The dollar notation `$` also works!
Added:
* Limited support for using compositions classes as formal S4
classes, for instance in slots of S4 classes expecting a
"data.frame" or a "structure" (matrix or array).
* self-invertibility: now "rmult" objects created by any
transformation (cdt, clr, cpt, idt, ilr, ipt, iit, ilt, alr,
apt) remember the original data and the transformation between
them, and can be back-transformed with `backtransform`.
* added cdt and idt methods for objects of class "factor" (returning
the contrasts and their ipt transformation), and for "data.frame"
objects (exploiting the attribute "origClass" if they have it).
* `pwlr()`: pairwise logratio transformation (and inverse: `pwlrInv()`)
* `pwlrPlot()`: pairwise logratio plots vs covariables, both as explained
and as explanatory variables. This makes use of the ability of plot(x~y)
to react to the nature of `x` and `y` to create scatterplots, boxplots
and spineplots.
* transformation functions between variation and clrvar: variation2clrvar
and clrvar2variation
* `split()` methods for compositional classes
* new panels for filling `pairs()` plots with boxplots, densities,
kde2d-densities, etc...: check ?vp.kde2dplot
Minor Changes:
* the function to fit linear models of coregionalisation is now called
`fit.lmc()`; use full name specification with it! `compositions::fit.lmc()`
Bugfixes:
* bug in subsetting of one-column rmult object corected
|
|
|
|
|
|
|
|
upstream changes:
-----------------
fetchmail-6.4.21 (released 2021-08-09, 30042 LoC):
# REGRESSION FIX:
* The new security fix in 6.4.20 for CVE-2021-36386 caused truncation of
messages logged to buffered outputs, predominantly --logfile.
This also caused lines in the logfile to run into one another because
the fragment containing the '\n' line-end character was usually lost.
Reason is that on all modern systems (with <stdarg.h> header and vsnprintf()
interface), the length of log message fragments was added up twice, so
that these ended too deep into a freshly allocated buffer, after the '\0'
byte. Unbuffered outputs flushed the fragments right away, which masked the
bug.
Reported by: Jürgen Edner, Erik Christiansen.
--------------------------------------------------------------------------------
fetchmail-6.4.20 (released 2021-07-28, 30042 LoC):
# SECURITY FIX:
* When a log message exceeds c. 2 kByte in size, for instance, with very long
header contents, and depending on verbosity option, fetchmail can crash or
misreport each first log message that requires a buffer reallocation.
fetchmail then reallocates memory and re-runs vsnprintf() without another
call to va_start(), so it reads garbage. The exact impact depends on
many factors around the compiler and operating system configurations used and
the implementation details of the stdarg.h interfaces of the two functions
mentioned before. To fix CVE-2021-36386.
Reported by Christian Herdtweck of Intra2net AG, Tübingen, Germany.
He also offered a patch, which I could not take for fetchmail 6.4 because
it required a C99 system and I'd promised earlier that 6.4 would remain
compatible with C89 systems.
|
