diff --git a/bio/kallisto/quant/environment.yaml b/bio/kallisto/quant/environment.yaml
index 59cf57cc40..feb9c4c6ef 100644
--- a/bio/kallisto/quant/environment.yaml
+++ b/bio/kallisto/quant/environment.yaml
@@ -3,4 +3,4 @@ channels:
   - bioconda
   - nodefaults
 dependencies:
-  - kallisto =0.48.0
+  - kallisto =0.50.0
diff --git a/bio/kallisto/quant/meta.yaml b/bio/kallisto/quant/meta.yaml
index 4088f95a16..929846f620 100644
--- a/bio/kallisto/quant/meta.yaml
+++ b/bio/kallisto/quant/meta.yaml
@@ -1,4 +1,12 @@
 name: "kallisto quant"
 description: Pseudoalign reads and quantify transcripts using kallisto.
+url: https://github.com/pachterlab/kallisto
 authors:
   - Joël Simoneau
+input:
+  - fastq: FASTQ file(s)
+  - index: indexed file
+output:
+  - directory with results
+params:
+  - extra: Additional parameters
diff --git a/bio/kallisto/quant/test/index/transcriptome.idx b/bio/kallisto/quant/test/index/transcriptome.idx
index 646e3bab57..5bc2685918 100644
Binary files a/bio/kallisto/quant/test/index/transcriptome.idx and b/bio/kallisto/quant/test/index/transcriptome.idx differ
diff --git a/bio/kallisto/quant/test/reads/A_R1.fastq b/bio/kallisto/quant/test/reads/A_R1.fastq
index f644799058..999ed649ab 100644
--- a/bio/kallisto/quant/test/reads/A_R1.fastq
+++ b/bio/kallisto/quant/test/reads/A_R1.fastq
@@ -1,4 +1,4 @@
 @1
-GCTAGC
+GCTAGCTCAGAAAAAAAAAATCGTCGCGTGCGCGT
 +
-!!!!!!
+!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
diff --git a/bio/kallisto/quant/test/reads/A_R2.fastq b/bio/kallisto/quant/test/reads/A_R2.fastq
index f644799058..999ed649ab 100644
--- a/bio/kallisto/quant/test/reads/A_R2.fastq
+++ b/bio/kallisto/quant/test/reads/A_R2.fastq
@@ -1,4 +1,4 @@
 @1
-GCTAGC
+GCTAGCTCAGAAAAAAAAAATCGTCGCGTGCGCGT
 +
-!!!!!!
+!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
diff --git a/bio/kallisto/quant/wrapper.py b/bio/kallisto/quant/wrapper.py
index 74dafe4838..99342ae103 100644
--- a/bio/kallisto/quant/wrapper.py
+++ b/bio/kallisto/quant/wrapper.py
@@ -20,10 +20,10 @@
 
 shell(
     "kallisto quant "  # Tool
-    "{extra} "  # Optional parameters
-    "--threads={snakemake.threads} "  # Number of threads
-    "--index={snakemake.input.index} "  # Input file
-    "--output-dir={snakemake.output} "  # Output directory
-    "{fastq} "  # Input FASTQ files
-    "{log}"  # Logging
+    " --threads {snakemake.threads}"  # Number of threads
+    " --index {snakemake.input.index}"  # Input file
+    " {extra}"  # Optional parameters
+    " --output-dir {snakemake.output}"  # Output directory
+    " {fastq}"  # Input FASTQ files
+    " {log}"  # Logging
 )