updated samplesheets

phac-nml · Oct 31, 2024 · db34308 · db34308
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commit db34308
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Showing 8 changed files with 8 additions and 8 deletions.
diff --git a/tests/data/samplesheets/samplesheet-campy-staph.csv b/tests/data/samplesheets/samplesheet-campy-staph.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 CSE,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/reads/campy-staph1.fq.gz,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/reads/campy-staph2.fq.gz,,
diff --git a/tests/data/samplesheets/samplesheet-small-assembly.csv b/tests/data/samplesheets/samplesheet-small-assembly.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 short,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/reads/1_R1.fq.gz,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/reads/1_R2.fq.gz,,
diff --git a/tests/data/samplesheets/samplesheet-small-metagenomic.csv b/tests/data/samplesheets/samplesheet-small-metagenomic.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 meta-small,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/reads/metagenomic_reads1.fq.gz,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/reads/metagenomic_reads2.fq.gz,,
diff --git a/tests/data/samplesheets/samplesheet-test-from-assemblies-listeria.csv b/tests/data/samplesheets/samplesheet-test-from-assemblies-listeria.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 listeria_GCF_000196035,,,,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/genomes/listeria/GCF_000196035.1_ASM19603v1_genomic.fna.gz
diff --git a/tests/data/samplesheets/samplesheet-test-from-assemblies-salmonella.csv b/tests/data/samplesheets/samplesheet-test-from-assemblies-salmonella.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 salmonella_GCA_000008105,,,,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/genomes/salmonella/GCA_000008105.1_ASM810v1_genomic.fna.gz
diff --git a/tests/data/samplesheets/samplesheet-test-from-assemblies-vibrio-stupid-names.csv b/tests/data/samplesheets/samplesheet-test-from-assemblies-vibrio-stupid-names.csv
@@ -1,2 +1,2 @@
-sample,sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,sample,fastq_1,fastq_2,long_reads,assembly
 INX,iridanext_output.,,,,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/fake_contigs/vibrio_cholerae/st_120.fa.gz
diff --git a/tests/data/samplesheets/samplesheet-test-from-assemblies-vibrio.csv b/tests/data/samplesheets/samplesheet-test-from-assemblies-vibrio.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 st_120,,,,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/fake_contigs/vibrio_cholerae/st_120.fa.gz
diff --git a/tests/data/samplesheets/samplesheet-test-from-assemblies.csv b/tests/data/samplesheets/samplesheet-test-from-assemblies.csv
@@ -1,2 +1,2 @@
-sample_name,fastq_1,fastq_2,long_reads,assembly
+sample,fastq_1,fastq_2,long_reads,assembly
 ecoli_GCA_000947975,,,,https://github.com/phac-nml/mikrokondo/raw/dev/tests/data/genomes/ecoli/GCA_000947975.1_ASM94797v1_genomic.fna.gz