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Fix build error with --build-template conda/micromamba:v2 for singularity #972

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Fix build error with --build-template conda/micromamba:v2 for singularity #972

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87c5c08
ignoring tar errors in singularity
munishchouhan Jan 27, 2026
d2d1e77
[release] test 1.32.3-A1
munishchouhan Jan 27, 2026
5bf4731
make singularity build single stage
munishchouhan Jan 29, 2026
8a5a0f0
fixed tests
munishchouhan Jan 30, 2026
dbfa665
Merge branch 'master' into 971-build-error-with-build-template-condam…
munishchouhan Feb 23, 2026
f07aecc
Merge branch 'master' into 971-build-error-with-build-template-condam…
pditommaso Mar 4, 2026
2d9f3c6
Merge branch 'master' into 971-build-error-with-build-template-condam…
munishchouhan Mar 9, 2026
b2cb7c3
Merge branch 'master' into 971-build-error-with-build-template-condam…
munishchouhan Mar 9, 2026
b502273
Merge branch 'master' into 971-build-error-with-build-template-condam…
munishchouhan Mar 12, 2026
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2 changes: 1 addition & 1 deletion VERSION
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Original file line number Diff line number Diff line change
@@ -1 +1 @@
1.32.2
1.32.3-A1
4 changes: 2 additions & 2 deletions src/main/resources/templates/conda-micromamba-v2/singularityfile-conda-file.txt
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Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@ Stage: build
echo ">> CONDA_LOCK_START"
cat environment.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/conda.tar.gz -C /opt conda
tar czf /opt/conda.tar.gz -C /opt conda 2>/dev/null || true

Bootstrap: docker
From: {{base_image}}
Expand All @@ -19,7 +19,7 @@ Stage: final
/opt/conda.tar.gz /opt/conda.tar.gz
%post
cd /opt
tar xzf conda.tar.gz
tar xzf conda.tar.gz 2>/dev/null || true
rm conda.tar.gz
%environment
export MAMBA_ROOT_PREFIX=/opt/conda
Expand Down
4 changes: 2 additions & 2 deletions src/main/resources/templates/conda-pixi-v1/singularityfile-conda-file.txt
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Expand Up @@ -12,7 +12,7 @@ Stage: build
echo ">> CONDA_LOCK_START"
cat /opt/wave/pixi.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default 2>/dev/null || true
ls -lh /opt/pixi-env.tar.gz

Bootstrap: docker
Expand All @@ -24,7 +24,7 @@ Stage: final
/shell-hook.sh /shell-hook.sh
%post
mkdir -p /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs 2>/dev/null || true
rm /opt/pixi-env.tar.gz
%environment
export PATH="$MAMBA_ROOT_PREFIX/bin:$PATH"
20 changes: 10 additions & 10 deletions src/test/groovy/io/seqera/wave/util/TemplateUtilsTest.groovy
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Expand Up @@ -624,7 +624,7 @@ class TemplateUtilsTest extends Specification {
echo ">> CONDA_LOCK_START"
cat /opt/wave/pixi.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default 2>/dev/null || true
ls -lh /opt/pixi-env.tar.gz

Bootstrap: docker
Expand All @@ -636,7 +636,7 @@ class TemplateUtilsTest extends Specification {
/shell-hook.sh /shell-hook.sh
%post
mkdir -p /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs 2>/dev/null || true
rm /opt/pixi-env.tar.gz
%environment
export PATH="$MAMBA_ROOT_PREFIX/bin:$PATH"
Expand All @@ -660,7 +660,7 @@ class TemplateUtilsTest extends Specification {
echo ">> CONDA_LOCK_START"
cat /opt/wave/pixi.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default 2>/dev/null || true
ls -lh /opt/pixi-env.tar.gz

Bootstrap: docker
Expand All @@ -672,7 +672,7 @@ class TemplateUtilsTest extends Specification {
/shell-hook.sh /shell-hook.sh
%post
mkdir -p /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs 2>/dev/null || true
rm /opt/pixi-env.tar.gz
%environment
export PATH="$MAMBA_ROOT_PREFIX/bin:$PATH"
Expand Down Expand Up @@ -702,7 +702,7 @@ class TemplateUtilsTest extends Specification {
echo ">> CONDA_LOCK_START"
cat /opt/wave/pixi.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default
tar czf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs default 2>/dev/null || true
ls -lh /opt/pixi-env.tar.gz

Bootstrap: docker
Expand All @@ -714,7 +714,7 @@ class TemplateUtilsTest extends Specification {
/shell-hook.sh /shell-hook.sh
%post
mkdir -p /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs
tar xzf /opt/pixi-env.tar.gz -C /opt/wave/.pixi/envs 2>/dev/null || true
rm /opt/pixi-env.tar.gz
%environment
export PATH="$MAMBA_ROOT_PREFIX/bin:$PATH"
Expand Down Expand Up @@ -776,7 +776,7 @@ class TemplateUtilsTest extends Specification {
echo ">> CONDA_LOCK_START"
cat environment.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/conda.tar.gz -C /opt conda
tar czf /opt/conda.tar.gz -C /opt conda 2>/dev/null || true

Bootstrap: docker
From: ubuntu:24.04
Expand All @@ -785,7 +785,7 @@ class TemplateUtilsTest extends Specification {
/opt/conda.tar.gz /opt/conda.tar.gz
%post
cd /opt
tar xzf conda.tar.gz
tar xzf conda.tar.gz 2>/dev/null || true
rm conda.tar.gz
%environment
export MAMBA_ROOT_PREFIX=/opt/conda
Expand All @@ -809,7 +809,7 @@ class TemplateUtilsTest extends Specification {
echo ">> CONDA_LOCK_START"
cat environment.lock
echo "<< CONDA_LOCK_END"
tar czf /opt/conda.tar.gz -C /opt conda
tar czf /opt/conda.tar.gz -C /opt conda 2>/dev/null || true

Bootstrap: docker
From: ubuntu:24.04
Expand All @@ -818,7 +818,7 @@ class TemplateUtilsTest extends Specification {
/opt/conda.tar.gz /opt/conda.tar.gz
%post
cd /opt
tar xzf conda.tar.gz
tar xzf conda.tar.gz 2>/dev/null || true
rm conda.tar.gz
%environment
export MAMBA_ROOT_PREFIX=/opt/conda
Expand Down
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