From 2f91a2f9f7afb64bb6f17135403bc7b26271a1ad Mon Sep 17 00:00:00 2001
From: Pierre Peterlongo <pierre.peterlongo@inria.fr>
Date: Wed, 26 Jun 2024 12:06:59 +0200
Subject: [PATCH] v0.6.6 - corrected a bug when using multiple input files

---
 Cargo.toml  | 2 +-
 README.md   | 2 +-
 VERSIONS.md | 2 ++
 src/cli.rs  | 2 +-
 src/main.rs | 2 +-
 5 files changed, 6 insertions(+), 4 deletions(-)

diff --git a/Cargo.toml b/Cargo.toml
index c8e3bda..08ebb56 100644
--- a/Cargo.toml
+++ b/Cargo.toml
@@ -1,6 +1,6 @@
 [package]
 name = "back_to_sequences"
-version = "0.6.5"
+version = "0.6.6"
 edition = "2021"
 
 authors = [
diff --git a/README.md b/README.md
index b96fd10..c48e161 100644
--- a/README.md
+++ b/README.md
@@ -195,7 +195,7 @@ Say you have three input read files `1.fa`, `2.fa`, `3.fa` to which you wish to
 1. create an input and an output files:
 ```bash
 ls 1.fa 2.fa 3.fa > in.fof
-echo 1_out.fa 2_out.fa 3_out.fa > out.fof
+echo "1_out.fa\n2_out.fa\n3_out.fa" > out.fof
 ```
 2. run `back_to_sequences`
 ```bash
diff --git a/VERSIONS.md b/VERSIONS.md
index 4690bf2..0e90014 100644
--- a/VERSIONS.md
+++ b/VERSIONS.md
@@ -50,4 +50,6 @@
     * Fixed a filtering bug: As percentage of shared kmers were rounded to 2 decimals, and as we exclude the min-threshold value, 
     some reads with shared kmers were discarded while 
     they contained shared kmers. Now the tset is made before to round values + output values are rounded to 5 decimals.
+* 0.6.6 26/06/2024
+    * Corrected a bug related to the usage of --in-filelist when querying multiple input files
     
\ No newline at end of file
diff --git a/src/cli.rs b/src/cli.rs
index 051adb5..c2744bd 100644
--- a/src/cli.rs
+++ b/src/cli.rs
@@ -113,7 +113,7 @@ pub fn validate_non_empty_file(in_file: String) -> anyhow::Result<()> {
             anyhow::bail!("{:#} exists, but it's not a file.", in_file)
         }
     } else {
-        anyhow::bail!("{:#} exists, but it's not a file.", in_file)
+        anyhow::bail!("{:#} is not a file.", in_file)
     }
 
     Ok(())
diff --git a/src/main.rs b/src/main.rs
index 8d6b0ae..e74f34a 100644
--- a/src/main.rs
+++ b/src/main.rs
@@ -25,7 +25,7 @@ fn main() -> anyhow::Result<()> {
     env::set_var("RAYON_NUM_THREADS", args.threads.to_string());
 
     // If out_sequences and out_kmers are not provided, we do nothing, we can quit
-    if args.out_sequences.is_empty() && args.out_kmers.is_empty() {
+    if args.out_sequences.is_empty() && args.out_filelist.is_empty() && args.out_kmers.is_empty() {
         anyhow::bail!("no output file provided, nothing to do");
     }