CI
4caaaf68ef
Build pipeline: openpipelines-bio.openpipeline.v4.0.0-kd9qj
Source commit: de02293c9e
Source message: Bump version to v4.0.0
24 lines
621 B
Bash
Executable File
24 lines
621 B
Bash
Executable File
#!/bin/bash
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set -eo pipefail
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# ensure that the command below is run from the root of the repository
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REPO_ROOT=$(git rev-parse --show-toplevel)
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cd "$REPO_ROOT"
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# settings
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ID=tiledb
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OUT="resources_test/$ID"
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# create raw directory
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raw_dir="$OUT/"
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mkdir -p "$raw_dir"
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viash run src/convert/from_h5mu_or_h5ad_to_tiledb/config.vsh.yaml -- \
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--input resources_test/pbmc_1k_protein_v3/pbmc_1k_protein_v3_mms.h5mu \
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--tiledb_dir "$OUT"/pbmc_1k_protein_v3_mms \
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--rna_modality "rna" \
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--rna_raw_layer_input "X" \
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--rna_normalized_layer_input "log_normalized" \
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--rna_var_gene_names_input "gene_symbol" |