diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index d34537d2705265ca1ec0b446736d4443cec8ecda..ec090571ef61f8f65c9fd4e62b163a2a576d779d 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -177,7 +177,7 @@ override_inputBag:
   script:
   - hostname
   - ulimit -a
-  - nextflow -q run ./workflow/rna-seq.nf --deriva ./test_data/auth/credential.json --bdbag ./test_data/auth/cookies.txt --repRID Q-Y5F6 --inputBagForce test_data/bag/Replicate_Q-Y5F6.zip --ci true
+  - nextflow -q run ./workflow/rna-seq.nf --deriva ./test_data/auth/credential.json --bdbag ./test_data/auth/cookies.txt --repRID Q-Y5F6 --inputBagForce ./test_data/bag/Replicate_Q-Y5F6.zip --ci true
   - find . -type f -name "multiqc_data.json" -exec cp {} ./inputBagOverride_PE_multiqc_data.json \;
   artifacts:
     name: "$CI_JOB_NAME"
@@ -191,7 +191,7 @@ override_fastq:
   script:
   - hostname
   - ulimit -a
-  - nextflow -q run ./workflow/rna-seq.nf --deriva ./test_data/auth/credential.json --bdbag ./test_data/auth/cookies.txt --repRID Q-Y5F6 --fastqForce 'test_data/fastq/small/Q-Y5F6_1M.R{1,2}.fastq.gz' --ci true
+  - nextflow -q run ./workflow/rna-seq.nf --deriva ./test_data/auth/credential.json --bdbag ./test_data/auth/cookies.txt --repRID Q-Y5F6 --fastqsForce './test_data/fastq/small/Q-Y5F6_1M.R{1,2}.fastq.gz' --ci true
   - find . -type f -name "multiqc_data.json" -exec cp {} ./fastqOverride_PE_multiqc_data.json \;
   artifacts:
     name: "$CI_JOB_NAME"
diff --git a/README.md b/README.md
index b2aa90a63f1c35aa71cdf3b2b420d4f26a2e8b51..e96460d06765639842457004b56546a863f27273 100644
--- a/README.md
+++ b/README.md
@@ -50,7 +50,7 @@ To Run:
     * *current human* **38.p6.v31** = GRCh38.p12 with GENCODE annotation release 31
 * ***Optional*** input overrides
   * `--inputBagForce` utilizes a local replicate inputBag instead of downloading from the data-hub (still requires accurate repRID input)
-    * eg: `--inputBagForce test_data/bagit/Replicate_Q-Y5F6.zip` (must be the expected bagit structure)
+    * eg: `--inputBagForce test_data/bag/Replicate_Q-Y5F6.zip` (must be the expected bag structure)
   * `--fastqsForce` utilizes local fastq's instead of downloading from the data-hub (still requires accurate repRID input)
     * eg: `--fastqsForce 'test_data/fastq/small/Q-Y5F6_1M.R{1,2}.fastq.gz'` (note the quotes around fastq's which must me named in the correct standard [*\*.R1.fastq.gz and/or \*.R2.fastq.gz*] and in the correct order)
 * Tracking parameters ([Tracking Site](http://bicf.pipeline.tracker.s3-website-us-east-1.amazonaws.com/)):