MAINT: remove the Rust dependency (#164)

* MAINT: remove the Rust dependency * Revert the sra-tools changes * Simplify get-all tests * Re-implement and move _rewrite_fastq to utils * Append a newline to all test fastq files
bokulich-lab · Feb 8, 2024 · 90e9d6d · 90e9d6d
1 parent b418f80
commit 90e9d6d
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diff --git a/Makefile b/Makefile
@@ -16,13 +16,11 @@ test-cov: all
 
 install: all
 	bash install-sra-tools.sh
-	maturin build --release -m fastq_writer/Cargo.toml
 	$(PYTHON) setup.py install
-	$(PYTHON) -m pip install --no-deps fastq_writer --find-links fastq_writer/target/wheels/
 
 dev: all
 	bash install-sra-tools.sh
-	pip install coverage parameterized maturin==0.10.3
+	pip install coverage parameterized
 	pip install -e .
 
 clean: distclean

diff --git a/ci/recipe/meta.yaml b/ci/recipe/meta.yaml
@@ -14,29 +14,24 @@ build:
     make install
 
 requirements:
-  build:
-    - maturin ==0.10.3
-    - rust ==1.58.1
-
   host:
     - python {{ python }}
     - setuptools
 
   run:
-    - python {{ python }}
+    - entrezpy >=2.1.2
     - xmltodict
-    - pyzotero
+    - python {{ python }}
     - python-dotenv
-    - tqdm >=4.62.3
-    - entrezpy >=2.1.2
+    - pyzotero
     - q2-types {{ qiime2_epoch }}.*
     - qiime2 {{ qiime2_epoch }}.*
+    - tqdm >=4.62.3
 
 test:
   imports:
     - q2_fondue
     - qiime2.plugins.fondue
-    - fastq_writer
   requires:
     - parameterized
     - coverage

diff --git a/fastq_writer/Cargo.lock b/fastq_writer/Cargo.lock
diff --git a/fastq_writer/Cargo.toml b/fastq_writer/Cargo.toml
diff --git a/fastq_writer/data/test_input.fastq b/fastq_writer/data/test_input.fastq