fix ci: run only tests that does not involve any fits files, add fixm…

…e comment for fitsrs being too slow, git rm fits samples files from the repo
chrsoo · Jan 29, 2025 · dc26ed1 · dc26ed1
1 parent f3fa7c2
commit dc26ed1
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Showing 32 changed files with 18 additions and 113,332 deletions.
diff --git a/.github/workflows/rust.yml b/.github/workflows/rust.yml
@@ -16,11 +16,9 @@ jobs:
 
     steps:
     - uses: actions/checkout@v3
-      with:
-        lfs: true
-    - name: Checkout LFS objects
-      run: git lfs checkout
     - name: Build
       run: cargo build --verbose
+    # only run tests that does not involve fits files because they are not located in the repo anymore
+    # the (--lib) argument only execute tests from the library and not the doctest (which open a file not in the repo)
     - name: Run tests
-      run: cargo test --verbose
+      run: cargo test --lib --verbose -- --skip "test_fits"
diff --git a/samples/fits.gsfc.nasa.gov/Astro_UIT.fits b/samples/fits.gsfc.nasa.gov/Astro_UIT.fits
diff --git a/samples/fits.gsfc.nasa.gov/EUVE.fits b/samples/fits.gsfc.nasa.gov/EUVE.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_FGS.fits b/samples/fits.gsfc.nasa.gov/HST_FGS.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_FOC.fits b/samples/fits.gsfc.nasa.gov/HST_FOC.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_FOS.fits b/samples/fits.gsfc.nasa.gov/HST_FOS.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_HRS.fits b/samples/fits.gsfc.nasa.gov/HST_HRS.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_NICMOS.fits b/samples/fits.gsfc.nasa.gov/HST_NICMOS.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_WFPC_II.fits b/samples/fits.gsfc.nasa.gov/HST_WFPC_II.fits
diff --git a/samples/fits.gsfc.nasa.gov/HST_WFPC_II_bis.fits b/samples/fits.gsfc.nasa.gov/HST_WFPC_II_bis.fits
diff --git a/samples/fits.gsfc.nasa.gov/IUE_LWP.fits b/samples/fits.gsfc.nasa.gov/IUE_LWP.fits
diff --git a/samples/fits.gsfc.nasa.gov/Random_Groups.fits b/samples/fits.gsfc.nasa.gov/Random_Groups.fits
diff --git a/samples/hips2fits/.DS_Store b/samples/hips2fits/.DS_Store
diff --git a/samples/hips2fits/allsky_panstarrs.fits b/samples/hips2fits/allsky_panstarrs.fits
diff --git a/samples/hips2fits/cutout-CDS_P_HST_PHAT_F475W.fits b/samples/hips2fits/cutout-CDS_P_HST_PHAT_F475W.fits
diff --git a/samples/hipsgen/.DS_Store b/samples/hipsgen/.DS_Store
diff --git a/samples/hipsgen/Npix132.fits b/samples/hipsgen/Npix132.fits
diff --git a/samples/hipsgen/Npix133.fits b/samples/hipsgen/Npix133.fits
diff --git a/samples/hipsgen/Npix134.fits b/samples/hipsgen/Npix134.fits
diff --git a/samples/hipsgen/Npix140.fits b/samples/hipsgen/Npix140.fits
diff --git a/samples/hipsgen/Npix208.fits b/samples/hipsgen/Npix208.fits
diff --git a/samples/hipsgen/Npix282.fits b/samples/hipsgen/Npix282.fits
diff --git a/samples/hipsgen/Npix4906.fits b/samples/hipsgen/Npix4906.fits
diff --git a/samples/hipsgen/Npix691539.fits b/samples/hipsgen/Npix691539.fits
diff --git a/samples/hipsgen/Npix8.fits b/samples/hipsgen/Npix8.fits
diff --git a/samples/hipsgen/Npix9.fits b/samples/hipsgen/Npix9.fits
diff --git a/samples/misc/bonn.fits b/samples/misc/bonn.fits
diff --git a/samples/misc/skv1678175163788.fits b/samples/misc/skv1678175163788.fits
diff --git a/src/hdu/header/extension/asciitable.rs b/src/hdu/header/extension/asciitable.rs
@@ -310,7 +310,7 @@ mod tests {
     // These tests have been manually created thanks to this command on the fits files:
     // strings  samples/fits.gsfc.nasa.gov/HST_HRS.fits | fold -80 | grep "TBCOL" | tr -s ' ' | cut -d ' ' -f 3
     #[test]
-    fn test_asciitable_extension() {
+    fn test_fits_asciitable_extension() {
         compare_ascii_ext(
             "samples/fits.gsfc.nasa.gov/HST_FGS.fits",
             AsciiTable {

diff --git a/src/hdu/header/extension/bintable.rs b/src/hdu/header/extension/bintable.rs
@@ -332,7 +332,7 @@ mod tests {
     // These tests have been manually created thanks to this command on the fits files:
     // strings  samples/fits.gsfc.nasa.gov/HST_HRS.fits | fold -80 | grep "TBCOL" | tr -s ' ' | cut -d ' ' -f 3
     #[test]
-    fn test_bintable_extension() {
+    fn test_fits_bintable_extension() {
         compare_bintable_ext(
             "samples/fits.gsfc.nasa.gov/IUE_LWP.fits",
             BinTable {

diff --git a/src/hdu/header/mod.rs b/src/hdu/header/mod.rs
@@ -527,12 +527,10 @@ mod tests {
     }
 
     #[test]
-    fn test_keywords_iter() {
+    fn test_fits_keywords_iter() {
         let f = File::open("samples/misc/SN2923fxjA.fits").unwrap();
-        let bytes: Result<Vec<_>, _> = f.bytes().collect();
-        let buf = bytes.unwrap();
 
-        let reader = Cursor::new(&buf[..]);
+        let reader = std::io::BufReader::new(f);
         let mut hdu_list = Fits::from_reader(reader);
 
         let hdu = hdu_list.next().unwrap().unwrap();
@@ -541,13 +539,14 @@ mod tests {
                 let mut actuals = hdu.get_header().keywords().collect::<Vec<_>>();
                 actuals.sort_unstable();
 
+                /* COMMENT and HISTORY are not part of the cards having values which is what returns keywords */
                 let mut expected = VecDeque::from(vec![
-                    "BAYERIND", "BITCAMPX", "CALPHOT", "CCD-TEMP", "CD1_1", "CD1_2", "CD2_1",
-                    "CD2_2", "CDELT1", "CDELT2", "CDELTM1", "CDELTM2", /* "COMMENT",*/ "COMPRESS",
+                    "BAYERIND", "BITCAMPX", "BITPIX", "CALPHOT", "CCD-TEMP", "CD1_1", "CD1_2", "CD2_1",
+                    "CD2_2", "CDELT1", "CDELT2", "CDELTM1", "CDELTM2"/*,  "COMMENT" */, "COMPRESS",
                     "CRPIX1", "CRPIX2", "CRVAL1", "CRVAL2", "CTYPE1", "CTYPE2", "CUNIT1",
                     "CUNIT2", "CVF", "DATAMAX", "DATAMIN", "DATE", "DATE-OBS", "DEC",
                     "DEWPOINT", "DIAMETER", "ERRFLUX", "EXPOSURE", "FILTERS", "FOCAL",
-                    "FOCUSPOS", "FOCUSTMP", "GAIN_ELE", /* "HISTORY",*/ "HUMIDITY", "IMGTYPE",
+                    "FOCUSPOS", "FOCUSTMP", "GAIN_ELE", /*"HISTORY", */ "HUMIDITY", "IMGTYPE",
                     "INSTRUME", "MAGREF", "MIRORX", "NAXIS", "NAXIS1", "NAXIS2", "OBJCTDEC",
                     "OBJCTRA", "OBSERVER", "OFFSET_E", "ORIGIN", "P3DSPHER", "PCXASTRO",
                     "PCYASTRO", "PDEC_REF", "PDIMPOL", "PIERSIDE", "PPLATESD", "PPXC", "PPYC",
@@ -574,7 +573,7 @@ mod tests {
                     "PSOLY22", "PSOLY23", "PSOLY24", "PSOLY25", "PSOLY26", "PSOLY27",
                     "PSOLY28", "PSOLY29", "PSOLY3", "PSOLY30", "PSOLY31", "PSOLY32", "PSOLY33",
                     "PSOLY34", "PSOLY35", "PSOLY36", "PSOLY4", "PSOLY5", "PSOLY6", "PSOLY7",
-                    "PSOLY8", "PSOLY9", "PSSX", "PSSY", "RA", "READOUTT", "REFFLUX", "SITELAT",
+                    "PSOLY8", "PSOLY9", "PSSX", "PSSY", "RA", "READOUTT", "REFFLUX", "SIMPLE", "SITELAT",
                     "SITELONG", "STACKNB", "STARCNT", "SWCREATE", "TELESCOP", "TEMPEXT", "UT",
                     "WINDIR", "WINSPEED", "X1", "X2", "XPIXELSZ", "XPIXSZ", "Y1", "Y2",
                     "YPIXELSZ", "YPIXSZ"

diff --git a/src/lib.rs b/src/lib.rs
@@ -97,7 +97,7 @@ mod tests {
     #[test_case("samples/fits.gsfc.nasa.gov/HST_NICMOS.fits", 7, 0, 0)]
     #[test_case("samples/fits.gsfc.nasa.gov/HST_WFPC_II.fits", 2, 1, 0)]
     #[test_case("samples/fits.gsfc.nasa.gov/HST_WFPC_II_bis.fits", 2, 0, 0)]
-    fn test_count_hdu(
+    fn test_fits_count_hdu(
         filename: &str,
         num_image_ext: usize,
         num_asciitable_ext: usize,
@@ -210,8 +210,9 @@ mod tests {
     #[test_case("samples/vizier/VAR.358.R.fits", false)]
     #[test_case("samples/fits.gsfc.nasa.gov/IUE_LWP.fits", false)]
     #[test_case("samples/misc/bonn.fits", false)]
-    #[test_case("samples/misc/EUC_MER_MOSAIC-VIS-FLAG_TILE100158585-1EC1C5_20221211T132329.822037Z_00.00.fits", false)]
-    #[test_case("samples/misc/P122_49.fits", false)]
+    // FIXME too slow, to retest when we implement the seek of the data unit part
+    //#[test_case("samples/misc/EUC_MER_MOSAIC-VIS-FLAG_TILE100158585-1EC1C5_20221211T132329.822037Z_00.00.fits", false)]
+    //#[test_case("samples/misc/P122_49.fits", false)]
     #[test_case("samples/misc/skv1678175163788.fits", false)]
     #[test_case("samples/misc/SN2923fxjA.fits", false)]
     fn test_fits_opening(filename: &str, corrupted: bool) {
@@ -447,7 +448,8 @@ mod tests {
         assert!(hdu_list.next().unwrap().is_err());
     }
 
-    #[test_case("samples/misc/EUC_MER_MOSAIC-VIS-FLAG_TILE100158585-1EC1C5_20221211T132329.822037Z_00.00.fits")]
+    // FIXME too slow, to retest when we implement the seek of the data unit part
+    //#[test_case("samples/misc/EUC_MER_MOSAIC-VIS-FLAG_TILE100158585-1EC1C5_20221211T132329.822037Z_00.00.fits")]
     #[test_case("samples/fits.gsfc.nasa.gov/EUVE.fits")]
     #[test_case("samples/fits.gsfc.nasa.gov/HST_FOC.fits")]
     #[test_case("samples/vizier/new_url.fits")]