Fixes for linter action

.github/workflows/am4_regression_parallelWorks_intel_tag.yml

@@ -1,5 +1,5 @@
 name: Tag CI libFMS with AM4 regression
-  
+
 on:
    push:
         tags:
@@ -14,7 +14,7 @@ jobs:
       max-parallel: 3
       matrix:
         include:
-# Runs AM4 with intel18 on AM4_intel18 
+# Runs AM4 with intel18 on AM4_intel18
 #                - runname: AM4 build and run with intel 18
 #                  runscript: python3 /home/Thomas.Robinson/pw/storage/pw_api_python/AM4_intel18StartClusters.py am4_intel18
 # Runs AM4 using a container to build and run the model with intel 21

.github/workflows/build_cmake_gnu.yml

@@ -4,7 +4,7 @@ on: [push, pull_request]
 
 jobs:
   build:
-    runs-on: ubuntu-latest 
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         omp-flags: [ -DOPENMP=on, -DOPENMP=off ]
@@ -16,7 +16,7 @@ jobs:
     steps:
     - name: Checkout code
       uses: actions/checkout@v2
-    - name: Generate makefiles with CMake 
+    - name: Generate makefiles with CMake
       run: cmake $CMAKE_FLAGS .
     - name: Build the library
       run: make

.github/workflows/lint_fms.yml

@@ -9,4 +9,4 @@ jobs:
       - name: Checkout code
         uses: actions/checkout@v2
       - name: Run Lint
-        uses: NOAA-GFDL/simple_lint@v2
+        uses: NOAA-GFDL/simple_lint@v3

.github/workflows/parallelWorks_intel_pr.yml

@@ -1,5 +1,5 @@
 name: Pull Request CI libFMS with intel18 and intel21
-  
+
 on: [pull_request,workflow_dispatch]
 jobs:
    parallelWorks:
@@ -9,7 +9,7 @@ jobs:
       max-parallel: 2
       matrix:
         include:
-# Turn this back on when fixed 
+# Turn this back on when fixed
                 - runname: FMS with intel 18
                   runscript: python3 /home/Thomas.Robinson/pw/storage/pw_api_python/PRFMSintel18StartClusters.py $GITHUB_REF
 # Runs on FMS_CONTAINER_CI cluster

.github/workflows/update_docs.yml

@@ -9,7 +9,7 @@ jobs:
     steps:
       - name: Checkout code
         uses: actions/checkout@v2
-      - name: Setup repo 
+      - name: Setup repo
         run: | # do autotool's job for substitutes since we don't need a full build environement
           mkdir gen_docs
           sed 's/@abs_top_builddir@\/docs/gen_docs/' docs/Doxyfile.in > gen_docs/Doxyfile

Makefile.am

@@ -83,9 +83,9 @@ AM_FCFLAGS = $(FC_MODINC). $(FC_MODOUT)$(MODDIR)
 noinst_LTLIBRARIES = libFMS_mod.la
 libFMS_mod_la_SOURCES = libFMS.F90
 
-fms.$(FC_MODEXT): .mods/*_mod.$(FC_MODEXT) 
+fms.$(FC_MODEXT): .mods/*_mod.$(FC_MODEXT)
 
-nodist_include_HEADERS = libFMS_mod.la 
+nodist_include_HEADERS = libFMS_mod.la
 
 include $(top_srcdir)/mkmods.mk
 

amip_interp/amip_interp.F90

@@ -28,7 +28,8 @@
 !!
 !! 1. AMIP @link http://www-pcmdi.llnl.gov/amip @endlink from Jan 1979 to Jan 1989 (2 deg x 2 deg)
 !! 2. Reynolds OI @link amip_interp.rey_oi.txt @endlink from Nov 1981 to Jan 1999 (1 deg x 1 deg)
-!! 3. Reynolds EOF @link ftp://podaac.jpl.nasa.gov/pub/sea_surface_temperature/reynolds/rsst/doc/rsst.html @endlink from Jan 1950 to Dec 1998 (2 deg x 2 deg)
+!! 3. Reynolds EOF @link ftp://podaac.jpl.nasa.gov/pub/sea_surface_temperature/reynolds/rsst/doc/rsst.html
+!! @endlink from Jan 1950 to Dec 1998 (2 deg x 2 deg)
 !!
 !! All original data are observed monthly means. This module
 !! interpolates linearly in time between pairs of monthly means.
@@ -500,7 +501,8 @@ subroutine get_amip_sst (Time, Interp, sst, err_msg, lon_model, lat_model)
     if (DEBUG) then
           call get_date(Amip_Time,jhctod(1),jhctod(2),jhctod(3),jhctod(4),jhctod(5),jhctod(6))
           if (mpp_pe() == 0) then
-             write (*,200) 'JHC: use_daily = F, AMIP_Time: ',jhctod(1),jhctod(2),jhctod(3),jhctod(4),jhctod(5),jhctod(6)
+             write (*,200) 'JHC: use_daily = F, AMIP_Time: ',jhctod(1),jhctod(2),jhctod(3),jhctod(4),jhctod(5), &
+                   & jhctod(6)
              write (*,300) 'JHC: use_daily = F, interped SST: ', sst(1,1),sst(5,5),sst(10,10)
           endif
     endif
@@ -511,7 +513,8 @@ subroutine get_amip_sst (Time, Interp, sst, err_msg, lon_model, lat_model)
 ! add by JHC
 else
     call get_date(Amip_Time,jhctod(1),jhctod(2),jhctod(3),jhctod(4),jhctod(5),jhctod(6))
-     if (mpp_pe() == mpp_root_pe()) write(*,200) 'amip_interp_mod: use_daily = T, Amip_Time = ',jhctod(1),jhctod(2),jhctod(3),jhctod(4),jhctod(5),jhctod(6)
+     if (mpp_pe() == mpp_root_pe()) write(*,200) 'amip_interp_mod: use_daily = T, Amip_Time = ',jhctod(1), &
+        & jhctod(2),jhctod(3),jhctod(4),jhctod(5),jhctod(6)
 
     yr = jhctod(1); mo = jhctod(2); dy = jhctod(3)
 

astronomy/astronomy.F90

@@ -129,7 +129,8 @@ module astronomy_mod
 !! @param [in] <time> Time at which astronomical values are desired (time_type variable) [seconds, days]
 !! @param [out] <cosz> Cosine of solar zenith angle, set to zero when entire period is in darkness [dimensionless]
 !! @param [out] <fracday> Daylight fraction of time interval [dimensionless]
-!! @param [out] <rrsun> Earth-Sun distance (r) relative to semi-major axis of orbital ellipse (a):(a/r)**2 [dimensionless]
+!! @param [out] <rrsun> Earth-Sun distance (r) relative to semi-major axis of orbital ellipse
+!! (a):(a/r)**2 [dimensionless]
 !! @param [in] <dt> OPTIONAL: Time interval after gmt over which the astronomical variables are to be
 !!                  averaged. this produces averaged output rather than instantaneous. [radians], (1 day = 2 * pi)
 !! @param [in] <dt_time> OPTIONAL: Time interval after gmt over which the astronomical variables are to be
@@ -190,8 +191,10 @@ module astronomy_mod
 !! @param [in] <time> Time at which astronomical values are desired (time_type variable) [seconds, days]
 !! @param [out] <cosz> Cosine of solar zenith angle, set to zero when entire period is in darkness [dimensionless]
 !! @param [out] <fracday> Daylight fraction of time interval [dimensionless]
-!! @param [out] <rrsun> Earth-Sun distance (r) relative to semi-major axis of orbital ellipse (a):(a/r)**2 [dimensionless]
-!! @param [out] <solar> shortwave flux factor: cosine of zenith angle * daylight fraction / (earth-sun distance squared) [dimensionless]
+!! @param [out] <rrsun> Earth-Sun distance (r) relative to semi-major axis of orbital ellipse
+!! (a):(a/r)**2 [dimensionless]
+!! @param [out] <solar> shortwave flux factor: cosine of zenith angle * daylight fraction /
+!! (earth-sun distance squared) [dimensionless]
 !> @ingroup astronomy_mod
 interface daily_mean_solar
    module procedure daily_mean_solar_2d
@@ -1480,7 +1483,8 @@ end subroutine daily_mean_solar_1d
 !! @param [in] <lat> Latitudes of model grid points
 !! @param [in] <time_since_ae> Time of year; autumnal equinox = 0.0, one year = 2 * pi
 !! @param [out] <cosz> Cosine of solar zenith angle
-!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction / (earth-sun distance squared)
+!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction /
+!! (earth-sun distance squared)
 subroutine daily_mean_solar_2level (lat, time_since_ae, cosz, solar)
 
 !----------------------------------------------------------------------
@@ -1649,7 +1653,8 @@ end subroutine daily_mean_solar_cal_1d
 !! @param [in] <lat> Latitudes of model grid points
 !! @param [in] <time> Time of year (time_type)
 !! @param [out] <cosz> Cosine of solar zenith angle
-!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction / (earth-sun distance squared)
+!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction /
+!! (earth-sun distance squared)
 subroutine daily_mean_solar_cal_2level (lat, time, cosz, solar)
 
 real, dimension(:),  intent(in)   :: lat
@@ -1735,7 +1740,8 @@ end subroutine daily_mean_solar_cal_0d
 !! @param [in] <jnd> Ending index of latitude window
 !! @param [in] <lat> Latitudes of model grid points
 !! @param [out] <cosz> Cosine of solar zenith angle
-!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction / (earth-sun distance squared)
+!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction /
+!! (earth-sun distance squared)
 !! @param [out] <fracday> Daylight fraction of time interval
 !! @param [out] <rrsun> Earth-Sun distance (r) relative to semi-major axis of orbital ellipse (a):(a/r)**2
 subroutine annual_mean_solar_2d (js, je, lat, cosz, solar, fracday,  &
@@ -1842,7 +1848,8 @@ end subroutine annual_mean_solar_2d
 !! @param [in] <jnd> Ending index of latitude window
 !! @param [in] <lat> Latitudes of model grid points
 !! @param [out] <cosz> Cosine of solar zenith angle
-!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction / (earth-sun distance squared)
+!! @param [out] <solar> Shortwave flux factor: cosine of zenith angle * daylight fraction /
+!! (earth-sun distance squared)
 !! @param [out] <fracday> Daylight fraction of time interval
 !! @param [out] <rrsun_out> Earth-Sun distance (r) relative to semi-major axis of orbital ellipse (a):(a/r)**2
 subroutine annual_mean_solar_1d (jst, jnd, lat, cosz, solar,  &
@@ -2141,7 +2148,7 @@ function half_day_2d (latitude, dec) result(h)
 !---------------------------------------------------------------------
       real, dimension (size(latitude,1),size(latitude,2)):: &
                                                   cos_half_day, & !< Cosine of half-day length [dimensionless]
-                                                                                                  lat !< Model latitude, adjusted so that it is never 0.5*pi or -0.5*pi
+                                                  lat !< Model latitude, adjusted so that it is never 0.5*pi or -0.5*pi
       real :: tan_dec !< tangent of solar declination [dimensionless]
       real :: eps = 1.0E-05 !< small increment
 

axis_utils/axis_utils.F90

@@ -415,8 +415,8 @@ function frac_index (value, array)
     do i=2,ia
        if (array(i) < array(i-1)) then
           unit = stdout()
-          write (unit,*) '=> Error: "frac_index" array must be monotonically increasing when searching for nearest value to ',&
-                              value
+          write (unit,*) &
+            '=> Error: "frac_index" array must be monotonically increasing when searching for nearest value to ', value
           write (unit,*) '          array(i) < array(i-1) for i=',i
           write (unit,*) '          array(i) for i=1..ia follows:'
           do ii=1,ia

axis_utils/axis_utils2.F90

@@ -442,8 +442,8 @@ function frac_index (value, array)
     do i=2,ia
        if (array(i) < array(i-1)) then
           unit = stdout()
-          write (unit,*) '=> Error: "frac_index" array must be monotonically increasing when searching for nearest value to ',&
-                              value
+          write (unit,*) &
+            '=> Error: "frac_index" array must be monotonically increasing when searching for nearest value to ', value
           write (unit,*) '          array(i) < array(i-1) for i=',i
           write (unit,*) '          array(i) for i=1..ia follows:'
           do ii=1,ia