Unverified Commit e3d05618 authored by Nicola Soranzo's avatar Nicola Soranzo
Browse files

Merge branch 'release_21.05' into release_21.09

parents 3bc34bfc d51d9111

lib/galaxy/tool_util/deps/conda_util.py

+38 −19
Original line number Diff line number Diff line
@@ -102,9 +102,12 @@ class CondaContext(installable.InstallableContext): 
        else:

            ensure_channels = None

        self.ensure_channels = ensure_channels

        self.use_local = use_local

        self._reset_conda_properties()



    def _reset_conda_properties(self):

        self._conda_version = None

        self._conda_build_available = None

        self.use_local = use_local



    @property

    def conda_version(self):
@@ -123,9 +126,9 @@ class CondaContext(installable.InstallableContext): 
        self._conda_version = packaging.version.parse(info["conda_version"])

        self._conda_build_available = False

        conda_build_version = info.get("conda_build_version")

        if conda_build_version != "not installed":

        if conda_build_version and conda_build_version != "not installed":

            try:

                self._conda_version = packaging.version.parse(conda_build_version)

                packaging.version.parse(conda_build_version)

                self._conda_build_available = True

            except Exception:

                pass
@@ -226,14 +229,21 @@ class CondaContext(installable.InstallableContext): 
        """

        Return the process exit code (i.e. 0 in case of success).

        """

        for try_strict in [True, False]:

            create_args = ["-y", "--quiet"]

            if try_strict:

                if self.conda_version >= packaging.version.parse("4.7.5"):

                    create_args.append("--strict-channel-priority")

                else:

                    continue

            if allow_local and self.use_local:

            create_args.extend(["--use-local"])

                create_args.append("--use-local")

            create_args.extend(self._override_channels_args)

            create_args.extend(args)

        return self.exec_command("create", create_args, stdout_path=stdout_path)

            ret = self.exec_command("create", create_args, stdout_path=stdout_path)

            if ret == 0:

                break

        return ret



    def exec_remove(self, args):

        """
@@ -252,14 +262,23 @@ class CondaContext(installable.InstallableContext): 
        """

        Return the process exit code (i.e. 0 in case of success).

        """

        for try_strict in [True, False]:

            install_args = ["-y"]

            if try_strict:

                if self.conda_version >= packaging.version.parse("4.7.5"):

                    install_args.append("--strict-channel-priority")

                else:

                    continue

            if allow_local and self.use_local:

                install_args.append("--use-local")

            install_args.extend(self._override_channels_args)

            install_args.extend(args)

        return self.exec_command("install", install_args, stdout_path=stdout_path)

            ret = self.exec_command("install", install_args, stdout_path=stdout_path)

            if ret == 0:

                break

        if ret == 0:

            self._reset_conda_properties()

        return ret



    def exec_clean(self, args=None, quiet=False):

        """