2.99.67 Version ctest test py-compile failed SyntaxError: invalid syntax #577

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1. sludtke42 commented on May 28, 2025

   

   sludtke42

   on May 28, 2025 via email

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   As it states elsewhere, do not try to run the tests. They are not maintained due to manpower issues.

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   On May 28, 2025, at 2:12 AM, lillianokok ***@***.***> wrote: lillianokok created an issue (cryoem/eman2#577) <#577> hi When I was testing version 2.99.57, there was an error in progs. It was an error fragment: ctest -E "progs" -V -VV --debuge UpdateCTestConfiguration from :/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-build-dmkapzq/DartConfiguration.tcl UpdateCTestConfiguration from :/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-build-dmkapzq/DartConfiguration.tcl Test project /home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-build-dmkapzq Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: py-compile 1: Test command: /home/spack/opt/spack/linux-debian10-aarch64/gcc-8.3.0/python-3.8.8-2teergbqi4xrvcbwruvpqsga4v5osokp/bin/python3.8 "-m" "compileall" "-q" "-x" ".git" "-x" "sparx" "-x" "sphire" "/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src" 1: Test timeout computed to be: 10000000 1: *** Error compiling '/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e2gmm.py'... 1: File "/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e2gmm.py", line 2293 1: er=run(f"e2gmm_refine_point.py --projs {self.gmm}/particles_subset.lst --decoderentropy --npt {self.currun['ngauss']} --sym {sym} --maxboxsz {maxbox} --minressz {minboxp} --model {modelseg} --modelout {modelout} --niter 20 --nmid {self.currun['dim']} --evalmodel {self.gmm}/{self.currunkey}_model_projs.hdf --evalsize {self.jsparm['boxsize']} --decoderout {decoder} {conv} --ampreg 0.02 --ptclsclip {self.jsparm['boxsize']} --net_style {self.currun["net_style"]}") 1: ^ 1: SyntaxError: invalid syntax 1: 1: *** Error compiling '/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e3relion_convert.py'... 1: File "/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e3relion_convert.py", line 239 1: try: img=EMData(f"{options.datapath}/{imfsp.split("/")[-1]}",imn-1) 1: ^ 1: SyntaxError: f-string: unmatched '(' 1: 1/5 Test #1 <#1>: py-compile .......................***Failed 0.16 sec test 2 Start 2: imports — Reply to this email directly, view it on GitHub <#577>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACPKF2RC6E5B3YXYPEWHXAL3AVOUXAVCNFSM6AAAAAB6B6VU2GVHI2DSMVQWIX3LMV43ASLTON2WKOZTGA4TMMZQGAZDAOI>. You are receiving this because you are subscribed to this thread.
2. sludtke42 commented on May 28, 2025

   

   sludtke42

   on May 28, 2025 via email

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   But it's true that that is a syntax error and needs a patch :^)

   …

   On May 28, 2025, at 2:12 AM, lillianokok ***@***.***> wrote: lillianokok created an issue (cryoem/eman2#577) <#577> hi When I was testing version 2.99.57, there was an error in progs. It was an error fragment: ctest -E "progs" -V -VV --debuge UpdateCTestConfiguration from :/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-build-dmkapzq/DartConfiguration.tcl UpdateCTestConfiguration from :/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-build-dmkapzq/DartConfiguration.tcl Test project /home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-build-dmkapzq Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: py-compile 1: Test command: /home/spack/opt/spack/linux-debian10-aarch64/gcc-8.3.0/python-3.8.8-2teergbqi4xrvcbwruvpqsga4v5osokp/bin/python3.8 "-m" "compileall" "-q" "-x" ".git" "-x" "sparx" "-x" "sphire" "/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src" 1: Test timeout computed to be: 10000000 1: *** Error compiling '/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e2gmm.py'... 1: File "/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e2gmm.py", line 2293 1: er=run(f"e2gmm_refine_point.py --projs {self.gmm}/particles_subset.lst --decoderentropy --npt {self.currun['ngauss']} --sym {sym} --maxboxsz {maxbox} --minressz {minboxp} --model {modelseg} --modelout {modelout} --niter 20 --nmid {self.currun['dim']} --evalmodel {self.gmm}/{self.currunkey}_model_projs.hdf --evalsize {self.jsparm['boxsize']} --decoderout {decoder} {conv} --ampreg 0.02 --ptclsclip {self.jsparm['boxsize']} --net_style {self.currun["net_style"]}") 1: ^ 1: SyntaxError: invalid syntax 1: 1: *** Error compiling '/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e3relion_convert.py'... 1: File "/home/stage/root/spack-stage-eman2-2.99.67-dmkapzqpe6ybe3sx3vfdaq75rggl7v75/spack-src/programs/e3relion_convert.py", line 239 1: try: img=EMData(f"{options.datapath}/{imfsp.split("/")[-1]}",imn-1) 1: ^ 1: SyntaxError: f-string: unmatched '(' 1: 1/5 Test #1 <#1>: py-compile .......................***Failed 0.16 sec test 2 Start 2: imports — Reply to this email directly, view it on GitHub <#577>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACPKF2RC6E5B3YXYPEWHXAL3AVOUXAVCNFSM6AAAAAB6B6VU2GVHI2DSMVQWIX3LMV43ASLTON2WKOZTGA4TMMZQGAZDAOI>. You are receiving this because you are subscribed to this thread.
3. lillianokok commented on May 29, 2025

   

   lillianokok

   on May 29, 2025

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   But it's true that that is a syntax error and needs a patch :^)
   …

   ok