Documentation/Nightly/Developers/ReleaseProcess

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Release planning

Prerequisites

Account on the following systems are required:

For more details, see Resources

Contact <email>jcfr@kitware.com</email> or <email>sam.horvath@kitware.com</email> to request access.

Day 1: Release

Since there all development occurs on master, each time version is updated, two commits will be required.

Update Slicer.crt and commit change

See https://github.com/Slicer/Slicer/blob/master/Base/QTCore/Resources/Certs/README

CMakeLists.txt: Update the Slicer version information for the release

  1. Update the Slicer version information for the release:

    1. In CMakeLists.txt, update at least one these variables: Slicer_VERSION_MAJOR, Slicer_VERSION_MINOR, Slicer_VERSION_PATCH

    2. Re-run CMake with -DSlicer_RELEASE_TYPE:STRING=Stable. This is required to update Utilities/Scripts/SlicerWizard/__version__.py.

      Note If not doing a clean build, make sure to explicitly specify the version re-configuring the inner build with -DSlicer_VERSION_MAJOR:STRING=X -DSlicer_VERSION_MINOR:STRING=Y -DSlicer_VERSION_PATCH:STRING=Z -DSlicerApp_VERSION_MAJOR:STRING=X -DSlicerApp_VERSION_MINOR:STRING=Y -DSlicerApp_VERSION_PATCH:STRING=Z.

    3. Commit the above changes using this message like:

      ENH: Slicer X.Y.Z

Tag the repository

  1. Tag the repository:

    Set version variables: 

    X=<major-version>
Y=<minor-version>
Z=<patch-version>
echo "X.Y.Z is ${X}.${Y}.${Z}"

    GIT_TAG=v${X}.${Y}.${Z}
echo "GIT_TAG is ${GIT_TAG}"

    git checkout master
git tag -s -m "ENH: Slicer ${X}.${Y}.${Z}" ${GIT_TAG}
git push origin ${GIT_TAG}
  2. Keep track of the GIT_TAG for the next steps

CMakeLists.txt: Update the Slicer version information for the development

  1. Update the Slicer version information for the development:

    1. In CMakeLists.txt,

      • Update Slicer_VERSION_MAJOR and/or Slicer_VERSION_MINOR

    2. Re-run CMake with -DSlicer_RELEASE_TYPE:STRING=Experimental. This is required to update Utilities/Scripts/SlicerWizard/__version__.py.

      Note If not doing a clean build, make sure to explicitly specify the version re-configuring with -DSlicer_VERSION_MAJOR:STRING=X -DSlicer_VERSION_MINOR:STRING=Y -DSlicer_VERSION_PATCH:STRING=Z .

    3. Commit the above changes using this message like:

      cd ~/Projects/Slicer
git add -A
git commit -m "ENH: Begin X.Y.Z development"

Tag and publish SlicerBuildEnvironment docker image

  1. Tag the docker build environment image. See https://github.com/Slicer/SlicerBuildEnvironment/blob/master/README.rst#maintainers

    Note If the environment did not change, you may skip this step for patch release.

    Keep track of the selected TAG for updating the release scripts

Update release scripts

  1. Update release scripts. See https://github.com/Slicer/DashboardScripts#maintenance-guides

Disable regular nightly builds

  1. On each factory machines, disable regular nightly build in crontab and task scheduler.

Update ExtensionsIndex

This applies to https://github.com/Slicer/ExtensionsIndex and you should skip this step for patch release.

  1. Create branch X.Y based of master:

     DEST_VERSION=X.Y
 
 cd /tmp
 git clone git@github.com:Slicer/ExtensionsIndex 
 cd ExtensionsIndex
 git checkout master
 git push origin master:${DEST_VERSION}

Update CDash

This applies to the CDash instance associated with http://slicer.cdash.org/index.php?project=Slicer4 and you should skip this step for patch release.

  1. Create new CDash groups for extension submissions associated with X.Y release:

    Extensions-X.Y-Nightly
Extensions-X.Y-Continuous

Generate application and extension packages

  1. Generate packages running Slicer package scripts on each factory machines. (These are the scripts updated in the previous step)

Create release branch

You should skip this step for patch release.

  1. Create release branch:

    Set version variables (same value as in the previous step): 

     X=<major-version>
 Y=<minor-version>
 Z=<patch-version>
 echo "X.Y.Z is ${X}.${Y}.${Z}"

     GIT_TAG=v${X}.${Y}.${Z}
 echo "GIT_TAG is ${GIT_TAG}"

     cd ~/Projects/Slicer
 git checkout -b master-${X}.${Y} ${GIT_TAG}
 git push origin master-${X}.${Y}

Update Release Details on the wiki

  1. Update Release Details with release information

Day 2: Post release

Re-enable regular nightly builds

On each factory machines, re-enable build in crontab and task scheduler.


Update Slicer wiki

This applies to the MediaWiki instance associated with https://wiki.slicer.org

There are two steps involved:

  • copy of the pages associated with the Nightly namespace into the X.Y namespace.
  • update of permanent pages referencing the current Slicer version

As of November 2016, the process is fully automated and can be done using Base/Python/slicer/release/wiki.py script.

1) Install prerequisites:

  • Check with <email>jchris.fillionr@kitware.com</email> to get the credential associated with UpdateBot user.
  • Install mwdoc:
$ pip install mwdoc

2) Query current version information: 

$ python Base/Python/slicer/release/wiki.py query

3) Copy and update pages 

$ DEST_VERSION=X.Y

$ python Base/Python/slicer/release/wiki.py update ${DEST_VERSION}
$ python Base/Python/slicer/release/wiki.py copy ${DEST_VERSION}

The following pages have been updated:

The following pages with #REDIRECT have been updated:

Prepare Slicer Announcement

  • (1) Reusing previous documents available in this shared Google folder, create and update the following new Google documents:

    • Slicer 4.12: Kitware Social Media (Shared Publicly)

    • Slicer 4.12: Summary, Highlights and Changelog (Shared Publicly)

      Note Updating this document is currently a tedious manual process. It will soon be streamlined by including descriptive text with each contribution to the code base.

    • Slicer 4.12: Kitware Annoucement blog

  • (2) Once the Slicer 4.12 Release notes document is mature, post it on discourse for including images.

Clean-up older nightly packages

This applies to the Midas instance associated with http://slicer.kitware.com

See https://gist.github.com/jcfr/ea9ef199bd5a3e071b8f

Manually sign packages

  1. These instructions apply only to macOS and Windows packages


  1. If needed, create a X.Y.Z folder in Slicer/Packages/Application/Release
  2. Download package from http://slicer.cdash.org/index.php?project=Slicer4. You may have to click Previous to list the packages generated during Day1.
    3. 2018.10.19 slicer cdash build.png
  3. After downloading, locally compute the md5 sums and check that they match with the sums associated with download link displayed on the download page:
    4. 2018.10.19 slicer download package link.png

  4. Sign the package following these instructions:

  5. macOS only: Confirm that the signed package is valid by trying to install and run Slicer. Consider using a computer different from the build machine.
  6. Upload the signed package using upload-Slicer-to-slicer-kitware-com.cmake.
  7. The newly uploaded package will be listed in the Midas feed. See http://slicer.kitware.com/midas3/feed
    8. ReleaseProcess-Package-manually-uploaded-midas.png
  8. Manually update the name of the item removing the (1) suffix and appending [signed]. Make sure to not update the bitstream name. For example: see Slicer-4.8.0-win-amd64.exe [signed] available here
  9. For future reference, copy the unsigned packages into the folder created above (Keep the default Create a reference to the existing item)

Tag release packages

  1. These instructions apply only to the Linux package

Due to limitations of http://download.slicer.org, the Linux package must be downloaded and re-uploaded. On the other hand, the macOS and Windows packages uploaded during the manual signing are already associated with the release tag.

  1. Download packages from http://slicer.cdash.org/index.php?project=Slicer4. You may have to click Previous to list the packages generated during Day1.
    2. 2018.10.19 slicer cdash build.png
  2. After downloading, locally compute the md5 sums and check that they match with the sums associated with download link displayed on the download page:
    3. 2018.10.19 slicer download package link.png

  3. Re-upload each packages using upload-Slicer-to-slicer-kitware-com.cmake script.

    For convenience, the script can be found in these directories:

    • overload: 
      D:\Support\slicer-tagged-release-upload
    • metroplex: 
      /home/kitware/Support/slicer-tagged-release-upload
    • factory-south-macos: 
      /Volumes/D/Support/slicer-tagged-release-upload
  4. The newly uploaded packages will be listed in the Midas feed. See http://slicer.kitware.com/midas3/feed
  5. After each upload, manually update the name of the item removing the (1) suffix. Make sure to not update the bitstream name.
  6. For future reference, copy the packages into the folder created above (Keep the default Create a reference to the existing item)
    7. 2018.10.18 copy-package-into-release-folder.png

Confirm that packages are tagged

To confirm that all three packages are tagged. The following URL should return three packages:

http://slicer.kitware.com/midas3/api/json?method=midas.slicerpackages.package.list&release=4.10.0

Version NA-MIC data tree

This applies to the Midas instance associated with http://slicer.kitware.com


  1. If you do not have an account and/or if you do not belong to the DataManager group:

    • Create an account on the extension server and obtain an API Key. You will then use your midas login and api key to substitute <YOUR-MIDAS-LOGIN> and <YOUR-MIDAS-APIKEY> in the examples.

    • If not already done, go to NA-MIC community and click on Join community

    • Send an email on the developer list asking to be added to the DataManager group on NA-MIC community. That will grant you read/write permissions to the Data folder and sub-folders.

  2. Install prerequisites

    $ mkvirtualenv -p python2.7 version_namic_datatree
$ pip install pydas

  3. Confirm that the id of the Data folder is still 301.

  4. Simulate creation of X.Y data folders based Nightly ones

    MIDAS_EMAIL=<YOUR-MIDAS-LOGIN>
MIDAS_API_KEY=<YOUR-MIDAS-APIKEY>
DEST_VERSION=X.Y
DATA_FOLDER_ID=301

    $ cd /path/to/Slicer/Base/Python/slicer/release
$ python midasdata.py --url=http://slicer.kitware.com/midas3 --data_id=$DATA_FOLDER_ID \
  --email=$MIDAS_EMAIL --apikey=$MIDAS_API_KEY --source_version=Nightly --dest_version=$DEST_VERSION --dry-run

    Example of output: 

    Application ( folder_id: 302 )
'-Nightly ( folder_id: 831 )
'-'-Testing ( folder_id: 832 )
'-'-'-Baseline ( folder_id: 889 )
'-'-'-'-DiffusionTensorImagingTutorial.png ( item_id: 12067 )
'-'-'-'-NeurosurgicalPlanningTutorial.png ( item_id: 12066 )
'-'-'-'-SlicerTestingTest.png ( item_id: 17760 )
'-'-'-Input ( folder_id: 833 )
'-'-'-'-AtlasTests ( folder_id: 834 )
'-'-'-'-'-2012-10-26-BrainAtlas.mrb ( item_id: 10276 )
[...]
Module: VotingBinaryHoleFillingImageFilter ( folder_id: 1491 )
'-Nightly ( folder_id: 1491 )
'-'-Testing ( folder_id: 1492 )
'-'-'-Baseline ( folder_id: 1493 )
'-'-'-'-VotingBinaryHoleFillingImageFilterTest.nhdr ( item_id: 103418 )
'-'-'-'-VotingBinaryHoleFillingImageFilterTest.raw.gz ( item_id: 103419 )

  5. Create X.Y data tree based Nightly ones

    $ python midasdata.py --url=http://slicer.kitware.com/midas3 --data_id=301 \
  --email=$MIDAS_EMAIL --apikey=$MIDAS_API_KEY --source_version=Nightly --dest_version=$DEST_VERSION

Versioning of the NA-MIC Data tree for release X.Y...
Versioning Modules...
[...]
Versioning Modules...[DONE]
Versioning Application...
Creating folder X.Y under Application directory
Duplicating subfolders from Nightly to X.Y...
Duplicating subfolders from Nightly to X.Y...[DONE]
Versioning Application...[DONE]
Versioning of the NA-MIC Data tree for release X.Y...[DONE]

Update external website

  • http://www.nitrc.org/projects/slicer/
    • Login
    • Go to Downloads -> Admin.
    • Click on "Edit Release" associated with slicer package.
    • Click on "Edit" associated the release named "Latest".
    • Update Release Date field.
    • Click on Submit/Refresh

Update ExtensionStats extension

Publish Slicer Announcement


Appendix

Sign packages

macOS Code Signing

Packages have to be signed manually.

  • (1) connecting using SSH to sign-srv-mac.kitware.com (Available only from within Kitware internal network)

  • (2) Download signing script

    mkdir -p ~/tmp
cd ~/tmp
rm -rf macos-codesign-scripts
git clone https://github.com/jcfr/macos-codesign-scripts

  • (3) Download unsigned package using curl (using the URL reported on CDash). For example:

    curl -L "http://slicer.kitware.com/midas3/api/rest?method=midas.bitstream.download&name=Slicer-4.10.1-macosx-amd64.dmg&checksum=0b7b5603a3b8ec9a65a31e980703c984" -o Slicer-4.10.1-macosx-amd64.dmg

  • (4) Run signing script

    version=X.Y.Z
cd ~/tmp
./macos-codesign-scripts/sign.bash \
  org.slicer.slicer ${version} \
  "Developer ID Application: Kitware Inc. (W38PE5Y733)" \
  "Developer ID Installer: Kitware Inc. (W38PE5Y733)" \
  ./Slicer-${version}-macosx-amd64.dmg

Useful Commands:

  • To list of the keychain: security list-keychain

References:

Windows Code Signing

Packages have to be signed manually.

See Documentation/Nightly/Developers/Windows_Code_Signing for more information.

TBD - See #2697


Script to upload Slicer packages

File: upload-Slicer-to-slicer-kitware-com.cmake

cmake_minimum_required(VERSION 3.9.0)

#
# To run this script:
#
#  cmake -P upload-Slicer-to-slicer-kitware-com.cmake
#

#
# Variables to update:
#
#   package_dir
#   cmake_dir
#
#   release
#   source_revision
#   source_checkoutdate
#   MIDAS_PACKAGE_EMAIL
#   MIDAS_PACKAGE_API_KEY
#

set(package_dir         "C:/Users/dashboard/Downloads")
set(cmake_dir           "D:/D/N/Slicer-1/CMake")

set(operating_system    "win") # linux, macosx, win

set(release             "4.8.0")
set(source_revision     "26489")
set(source_checkoutdate "2017-10-18 05:11:33") # This corresponds to the start date reported on CDash (consider converting time from UDT to EST)
set(MIDAS_PACKAGE_EMAIL "<YOUR-MIDAS-LOGIN>")
set(MIDAS_PACKAGE_API_KEY "<YOUR-MIDAS-APIKEY>")

set(ext_linux  "tar.gz")
set(ext_macosx "dmg")
set(ext_win    "exe")

set(package_filepath    "${package_dir}/Slicer-${release}-${operating_system}-amd64.${ext_${operating_system}}")

message(STATUS "Upload ${package_filepath}")

set(MIDAS_PACKAGE_URL   "http://slicer.kitware.com/midas3")
set(submission_type     "experimental")
set(architecture        "amd64")
set(package_type        "installer")

list(APPEND CMAKE_MODULE_PATH
  ${cmake_dir}
  )
include(MIDASAPIUploadPackage)

midas_api_upload_package(
  SERVER_URL ${MIDAS_PACKAGE_URL}
  SERVER_EMAIL ${MIDAS_PACKAGE_EMAIL}
  SERVER_APIKEY ${MIDAS_PACKAGE_API_KEY}
  SUBMISSION_TYPE ${submission_type}
  SOURCE_REVISION ${source_revision}
  SOURCE_CHECKOUTDATE ${source_checkoutdate}
  OPERATING_SYSTEM ${operating_system}
  ARCHITECTURE ${architecture}
  PACKAGE_FILEPATH ${package_filepath}
  PACKAGE_TYPE ${package_type}
  RELEASE ${release}
  RESULT_VARNAME output
  )
set(expected_output "ok")
if(NOT "${output}" STREQUAL "${expected_output}")
  message(FATAL_ERROR "Problem with midas_api_upload_package()\n"
                      "output:${output}\n"
                      "expected_output:${expected_output}")
endif()

Limitations of download.slicer.org

Considering that

(1) few minutes after a package is uploaded on http://slicer.kitware.com, it is indexed in the database associated with http://download.slicer.org, and

(2) the system indexing the package does NOT rewrite its database entries,

using the steps below will NOT result in an update of the packages reported on http://download.slicer.org.


Source code available at https://github.com/mhalle/slicer4-download.


Explicit tagging of release packages

Steps:

  • If needed, create a X.Y.Z folder in Slicer/Packages/Application/Release
    • Copy uploaded packages into the folder created above (Keep the default Create a reference to the existing item)
    • Identify the item_id associated with uploaded packages. For example: 316530, 316529
    • From Kitware internal network, SSH connect to jcfr@slicer.kitware.com (or jcfr@192.168.120.210)
    • Connect to mysql
      • password=$(cat /var/www/midas3/core/configs/database.local.ini | grep database.params.password | cut -d"=" -f2 | head -n1 | sed 's/"//g')
      • mysql -u midas -p$password -D midas
      • See file /var/www/midas3/core/configs/database.local.ini for password
      • Selected database is midas (use midas)
    • List packages associated with identified items and check they are the appropriate ones:
      • select * from slicerpackages_package as p , item as i where i.item_id = p.item_id and p.item_id in (316530, 316529);
    • Set release field
      • update slicerpackages_package set `release`="4.8.0" where item_id in (316530, 316529);

User Survey (not used anymore)

See https://docs.google.com/forms/d/1rggxoTV5KL_vt3gX9BNNAcKH4pnL5lkMqPnklOThINg

With each release, the title of the survey had to be updated.

Now, the Slicer welcome module has been updated to ask user to report feedback on the Slicer forum


Converting Google document to markdown

  • (2) Open Google document in an other tab
  • (3) Go to Tools -> Script Editor
  • (4) Replace text with content of script opened in (1)
  • (5) Save script specifying name (e.g slicer-4.12-converttomarkdown). Note that the script is associated with the document and will have to be imported with new version of the document.
  • (6) From with the Script Editor, select Run -> Run Function -> ConvertToMarkdown
  • (7) When asked, authorize the script to access your account and review permissions.
  • (8) Check you email, you should receive a message entitled [MARKDOWN_MAKER] Title Of Document with an attachment named Title Of Document.md.


References:

Generating a Discourse compliant table of content for a Markdown document

Prerequisites:


Step-by-steps:

Assuming the document for which a table of content should be generated is saved as /tmp/document.md:

  • (1) Remove the "[[TOC]]" string left over from gdoc to markdown conversion
sed -i -E 's/^\[\[TOC\]\]//g' /tmp/document.md
  • (2) Generate table of content
$ gh-md-toc /tmp/document.md > /tmp/toc.md
  • (3) Create script to convert table of content and document to a format usable by discourse.
cat > /tmp/update-markdown-document-and-toc-for-discourse.sh << 'EOF'
#!/usr/bin/env bash

set -eo pipefail

if [ $# -ne 2 ]
then
  echo "Usage: $0 /path/to/toc.md /path/to/document.md"
  exit 0
fi

toc_document=$1
document=$2

for idx in $(seq 1 10); do
  # Compute number of spaces expected for each level
  (( space_count = ${idx} * 3 ))
  spaces=$(printf %${space_count}s)

  echo
  echo "${spaces}level ${idx}"

  # Extract title and anchor from each TOC entries associated with level ${idx}
  IFS=''
  cat ${toc_document} | ack "^${spaces}\* \[" | sed -E 's/^\s+\* \[//g' | sed -E 's/\]\(\#([0-9A-Za-z\-]+)\)/|\1/g' |
  while read line; do
    title=$(echo $line | cut -d"|" -f1)
    anchor=$(echo $line | cut -d"|" -f2)
    echo "${spaces}${title} - ${anchor}"

    # Replace title with html one
    header=$(printf %${idx}s | tr " " "#")
    sed -i -E "s|^${header} ${title}|\\<h${idx} id\\=\"heading--${anchor}\"\\>${title}\\<\\/h${idx}\\>|g" "${document}"

    # Replace anchor in table of content
    sed -i -E "s/#${anchor}/#heading--${anchor}/g" ${toc_document}
  done
done
EOF

chmod u+x /tmp/update-markdown-document-and-toc-for-discourse.sh
  • (4) Execute script to update in place the document
/tmp/update-markdown-document-and-toc-for-discourse.sh /tmp/toc.md /tmp/document.md
  • (5) Copy content of /tmp/toc.md and /tmp/document.md into a discourse post. Depending on the length of the table of content combined with the document, you may have to update the discourse settings max post length.
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