Installation issue

[kstpierre-9]

I'm having trouble installing smWRQW, which is preventing the installation of rloadest, since updating to the newest versions of R (3.6.1) and RStudio (1.2.1335) late last month. I've tried it in both platforms without success.

After trying a couple of different paths to install it, it always ends with the same result : "make: *** [AMLPVAL.o] Error 1", which I've only otherwise seen mentioned with issue #1 (now closed). The outputs from two different attempts are below.

Attempt 1: through installation of rloadest dependencies

> install.packages("rloadest") 

also installing the dependency ‘smwrQW’

Packages which are only available in source form, and may need
  compilation of C/C++/Fortran: ‘smwrQW’ ‘rloadest’
Do you want to attempt to install these from sources? (Yes/no/cancel) yes
installing the source packages ‘smwrQW’, ‘rloadest’

trying URL 'https://owi.usgs.gov/R/src/contrib/smwrQW_0.7.14.tar.gz'
Content type 'application/x-tar' length 2396120 bytes (2.3 MB)
==================================================
downloaded 2.3 MB

trying URL 'https://owi.usgs.gov/R/src/contrib/rloadest_0.4.5.tar.gz'
Content type 'application/x-tar' length 3946644 bytes (3.8 MB)
==================================================
downloaded 3.8 MB

* installing *source* package ‘smwrQW’ ...
** using staged installation
** libs
gfortran  -fPIC  -Wall -g -O2  -c AMLPVAL.f -o AMLPVAL.o
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:1:9: error: unsupported directive '.stabs'
        .stabs  "/private/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T/RtmpV5bNQw/R.INSTALL781b1b12bb53/smwrQW/src/",100,0,7,Ltext0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:2:9: error: unsupported directive '.stabs'
        .stabs  "AMLPVAL.f",100,0,7,Ltext0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:5:9: error: unsupported directive '.stabs'
        .stabs  "gcc2_compiled.",60,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:9:2: error: unknown directive
        .stabd  68,0,16
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:18:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:35:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:39:2: error: unknown directive
        .stabd  68,0,43
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:41:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:54:2: error: unknown directive
        .stabd  68,0,45
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:56:2: error: unknown directive
        .stabd  68,0,47
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:60:2: error: unknown directive
        .stabd  68,0,45
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:62:2: error: unknown directive
        .stabd  68,0,47
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:79:2: error: unknown directive
        .stabd  68,0,48
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:86:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:89:2: error: unknown directive
        .stabd  68,0,48
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:91:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:94:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:98:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:101:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:113:2: error: unknown directive
        .stabd  68,0,51
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:119:9: error: unsupported directive '.stabs'
        .stabs  "amlpval_:F(0,1)=(0,1)",36,0,16,_amlpval_
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:120:9: error: unsupported directive '.stabs'
        .stabs  "void:t(0,1)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:121:9: error: unsupported directive '.stabs'
        .stabs  "censflag:p(0,2)=*(0,3)=ar(0,4)=r(0,4);-2147483648;2147483647;;0;-1;(0,5)=@s32;-16;",160,0,16,8
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:122:9: error: unsupported directive '.stabs'
        .stabs  "nobsc:p(0,6)=&(0,4)",160,0,16,12
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:123:9: error: unsupported directive '.stabs'
        .stabs  "npar:p(0,6)",160,0,16,16
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:124:9: error: unsupported directive '.stabs'
        .stabs  "pval:p(0,7)=*(0,8)=ar(0,4);0;-1;(0,9)=r(0,4);8;0;",160,0,16,20
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:125:9: error: unsupported directive '.stabs'
        .stabs  "xlcal:p(0,10)=*(0,11)=ar(0,4);0;-1;(0,9)",160,0,16,24
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:126:9: error: unsupported directive '.stabs'
        .stabs  "xlike:p(0,12)=&(0,9)",160,0,16,28
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:127:9: error: unsupported directive '.stabs'
        .stabs  "yd:p(0,13)=*(0,14)=ar(0,4);0;-1;(0,9)",160,0,16,32
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:128:9: error: unsupported directive '.stabs'
        .stabs  "ylcal:p(0,15)=*(0,16)=ar(0,4);0;-1;(0,9)",160,0,16,36
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:129:9: error: unsupported directive '.stabs'
        .stabs  "ierr:p(0,6)",160,0,16,40
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:130:9: error: unsupported directive '.stabs'
        .stabs  "int4:t(0,4)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:131:9: error: unsupported directive '.stabs'
        .stabs  "logical4:t(0,5)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:132:9: error: unsupported directive '.stabs'
        .stabs  "real8:t(0,9)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:133:9: error: unsupported directive '.stabs'
        .stabs  "i:r(0,4)",64,0,31,2
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:134:9: error: unsupported directive '.stabs'
        .stabs  "k:(0,4)",128,0,31,-324
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:135:9: error: unsupported directive '.stabs'
        .stabs  "itest:(0,17)=ar(0,4);0;24;(0,4)",128,0,31,-108
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:136:9: error: unsupported directive '.stabs'
        .stabs  "xlikep:(0,18)=ar(0,4);0;24;(0,9)",128,0,32,-312
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:137:2: error: unknown directive
        .stabn  192,0,0,LBB2
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:138:2: error: unknown directive
        .stabn  224,0,0,LBE2
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:140:9: error: unsupported directive '.stabs'
        .stabs  "",36,0,0,Lscope1-LFBB1
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccbO33eK.s:141:9: error: unsupported directive '.stabs'
        .stabs  "",100,0,0,Letext0
                ^
make: *** [AMLPVAL.o] Error 1
ERROR: compilation failed for package ‘smwrQW’
* removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/smwrQW’
Warning in install.packages :
  installation of package ‘smwrQW’ had non-zero exit status
ERROR: dependency ‘smwrQW’ is not available for package ‘rloadest’
* removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/rloadest’
Warning in install.packages :
  installation of package ‘rloadest’ had non-zero exit status

The downloaded source packages are in
	‘/private/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T/RtmpNWfPi0/downloaded_packages’` 

Attempt 2: installation of smwrQW on its own.

> devtools::install_github("USGS-R/smwrQW")

Downloading GitHub repo USGS-R/smwrQW@master
─  cleaning srcCRIPTION meta-information ...z/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T/Rtmpy8BEDb/remotes78374d11ee2/USGS-R-smwrQW-48ed554/DESCRIPTION’ ...
   
* installing *source* package ‘smwrQW’ ...
** using staged installation
** libs
gfortran  -fPIC  -Wall -g -O2  -c AMLPVAL.f -o AMLPVAL.o
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:1:9: error: unsupported directive '.stabs'
        .stabs  "/private/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T/RtmplJkOei/R.INSTALL7899133718af/smwrQW/src/",100,0,7,Ltext0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:2:9: error: unsupported directive '.stabs'
        .stabs  "AMLPVAL.f",100,0,7,Ltext0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:5:9: error: unsupported directive '.stabs'
        .stabs  "gcc2_compiled.",60,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:9:2: error: unknown directive
        .stabd  68,0,16
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:18:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:35:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:39:2: error: unknown directive
        .stabd  68,0,43
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:41:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:54:2: error: unknown directive
        .stabd  68,0,45
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:56:2: error: unknown directive
        .stabd  68,0,47
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:60:2: error: unknown directive
        .stabd  68,0,45
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:62:2: error: unknown directive
        .stabd  68,0,47
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:79:2: error: unknown directive
        .stabd  68,0,48
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:86:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:89:2: error: unknown directive
        .stabd  68,0,48
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:91:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:94:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:98:2: error: unknown directive
        .stabd  68,0,41
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:101:2: error: unknown directive
        .stabd  68,0,42
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:113:2: error: unknown directive
        .stabd  68,0,51
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:119:9: error: unsupported directive '.stabs'
        .stabs  "amlpval_:F(0,1)=(0,1)",36,0,16,_amlpval_
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:120:9: error: unsupported directive '.stabs'
        .stabs  "void:t(0,1)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:121:9: error: unsupported directive '.stabs'
        .stabs  "censflag:p(0,2)=*(0,3)=ar(0,4)=r(0,4);-2147483648;2147483647;;0;-1;(0,5)=@s32;-16;",160,0,16,8
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:122:9: error: unsupported directive '.stabs'
        .stabs  "nobsc:p(0,6)=&(0,4)",160,0,16,12
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:123:9: error: unsupported directive '.stabs'
        .stabs  "npar:p(0,6)",160,0,16,16
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:124:9: error: unsupported directive '.stabs'
        .stabs  "pval:p(0,7)=*(0,8)=ar(0,4);0;-1;(0,9)=r(0,4);8;0;",160,0,16,20
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:125:9: error: unsupported directive '.stabs'
        .stabs  "xlcal:p(0,10)=*(0,11)=ar(0,4);0;-1;(0,9)",160,0,16,24
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:126:9: error: unsupported directive '.stabs'
        .stabs  "xlike:p(0,12)=&(0,9)",160,0,16,28
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:127:9: error: unsupported directive '.stabs'
        .stabs  "yd:p(0,13)=*(0,14)=ar(0,4);0;-1;(0,9)",160,0,16,32
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:128:9: error: unsupported directive '.stabs'
        .stabs  "ylcal:p(0,15)=*(0,16)=ar(0,4);0;-1;(0,9)",160,0,16,36
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:129:9: error: unsupported directive '.stabs'
        .stabs  "ierr:p(0,6)",160,0,16,40
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:130:9: error: unsupported directive '.stabs'
        .stabs  "int4:t(0,4)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:131:9: error: unsupported directive '.stabs'
        .stabs  "logical4:t(0,5)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:132:9: error: unsupported directive '.stabs'
        .stabs  "real8:t(0,9)",128,0,0,0
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:133:9: error: unsupported directive '.stabs'
        .stabs  "i:r(0,4)",64,0,31,2
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:134:9: error: unsupported directive '.stabs'
        .stabs  "k:(0,4)",128,0,31,-324
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:135:9: error: unsupported directive '.stabs'
        .stabs  "itest:(0,17)=ar(0,4);0;24;(0,4)",128,0,31,-108
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:136:9: error: unsupported directive '.stabs'
        .stabs  "xlikep:(0,18)=ar(0,4);0;24;(0,9)",128,0,32,-312
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:137:2: error: unknown directive
        .stabn  192,0,0,LBB2
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:138:2: error: unknown directive
        .stabn  224,0,0,LBE2
        ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:140:9: error: unsupported directive '.stabs'
        .stabs  "",36,0,0,Lscope1-LFBB1
                ^
/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//ccjBwW6o.s:141:9: error: unsupported directive '.stabs'
        .stabs  "",100,0,0,Letext0
                ^
make: *** [AMLPVAL.o] Error 1
ERROR: compilation failed for package ‘smwrQW’
* removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/smwrQW’
Error: Failed to install 'smwrQW' from GitHub:
  (converted from warning) installation of package ‘/var/folders/mz/1fmgrgmx2bq0g1trd6vz_cvh0000gn/T//Rtmpy8BEDb/file783763183421/smwrQW_0.7.14.tar.gz’ had non-zero exit status 

[ldecicco-USGS]

My first thought would be to choose "no" for the question "Do you want to attempt to install these from sources?". If you choose "no", it will use the binary package (and the external dependencies should be all bundled in there).

[kstpierre-9]

Ot seems to fully abort the installation when I select no for installing the sources (below)... After doing a bit of digging, it seems like it may be a more common issue to packages that require compiling in R 3.6.1 on Mac OSx...

install.packages("smwrQW")
Package which is only available in source form, and may need compilation of C/C++/Fortran:
‘smwrQW’
Do you want to attempt to install these from sources? (Yes/no/cancel) no

[end of code]

[ldecicco-USGS]

Ah, I missed that you were Mac. @wdwatkins or @aappling-usgs can you install smwrQW?

[aappling-usgs]

I've had trouble with smwrQW this week, too, but am seeing different messages (I think I'm missing the compiler) and haven't been able to debug thoroughly yet. I'm quite new to the Mac world, so I assume my current blocker is something simple.

[aappling-usgs]

@kstpierre-9 I was able to install smwrQW successfully this morning on my Mac. Because my computer is so new, all my packages and software are also current, and I never saw the error you reported above. This Stack Overflow post makes me think you might have success if you updated gfortran: https://stackoverflow.com/questions/47930557/cannot-install-xts-package-for-r-on-mac-os. I installed gfortran this morning using homebrew (brew install gcc).

Also, @ldecicco-USGS is working on getting a Mac binary posted to GRAN right now so that you shouldn't even need to install from source (i.e., compile the fortran code) in the near future.