Package evaluation of RNAstructure on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T09:18:02.078 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 6.07s ################################################################################ # Installation # Installing RNAstructure... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [daac0927] + RNAstructure v0.6.5 Updating `~/.julia/environments/v1.11/Manifest.toml` [8bb1440f] + DelimitedFiles v1.9.1 [692b3bcd] + JLLWrappers v1.7.0 [21216c6a] + Preferences v1.4.3 [daac0927] + RNAstructure v0.6.5 [1986cc42] + Unitful v1.22.0 [1d63c593] + LLVMOpenMP_jll v18.1.7+0 [82b15e58] + RNAstructure_jll v6.4.0+1 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.11.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.7.2+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+0 [14a3606d] + MozillaCACerts_jll v2023.12.12 [4536629a] + OpenBLAS_jll v0.3.27+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.59.0+0 [3f19e933] + p7zip_jll v17.4.0+2 Installation completed after 1.71s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 15.8s ################################################################################ # Testing # Testing RNAstructure Status `/tmp/jl_EbRiKH/Project.toml` [4c88cf16] Aqua v0.8.11 [8bb1440f] DelimitedFiles v1.9.1 [daac0927] RNAstructure v0.6.5 [1986cc42] Unitful v1.22.0 [82b15e58] RNAstructure_jll v6.4.0+1 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_EbRiKH/Manifest.toml` [4c88cf16] Aqua v0.8.11 [34da2185] Compat v4.16.0 [8bb1440f] DelimitedFiles v1.9.1 [692b3bcd] JLLWrappers v1.7.0 [21216c6a] Preferences v1.4.3 [daac0927] RNAstructure v0.6.5 [1986cc42] Unitful v1.22.0 [1d63c593] LLVMOpenMP_jll v18.1.7+0 [82b15e58] RNAstructure_jll v6.4.0+1 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 Testing Running tests... testing RNAstructure testing Aqua.test_all testing __init__ env vars testing parse_ct_format testing print_ct_format testing plot testing bpp testing ct2dbn testing cyclefold_bpp testing cyclefold_mea testing cyclefold_mfe testing dbn2ct testing dbn2ct |> ct2dbn testing design testing energy testing ensemble_defect testing mea testing mfe testing partfn testing prob_of_structure testing remove_pknots testing sample_structures testing subopt testing subopt_all testing run_AllSub testing run_ct2dot testing run_CycleFold testing run_dot2ct testing run_draw testing run_EDcalculator testing run_efn2 testing run_EnsembleEnergy testing run_Fold testing run_MaxExpect testing run_partition! testing run_ProbabilityPlot testing run_RemovePseudoknots testing run_stochastic Test Summary: | Pass Broken Total Time RNAstructure | 366 4 370 1m32.7s Aqua.test_all | 11 11 30.8s __init__ env vars | 13 13 0.4s parse_ct_format | 16 16 0.4s print_ct_format | 1 1 0.1s plot | 11 11 0.4s bpp | 17 17 2.4s ct2dbn | 7 1 8 0.3s cyclefold_bpp | 14 14 4.4s cyclefold_mea | 14 14 2.1s cyclefold_mfe | 14 14 5.1s dbn2ct | 23 23 0.3s dbn2ct |> ct2dbn | 7 1 8 0.4s design | 3 3 4.6s energy | 11 1 12 4.0s ensemble_defect | 7 7 1.1s mea | 14 14 2.3s mfe | 5 5 0.5s partfn | 5 5 0.6s prob_of_structure | 5 1 6 4.1s remove_pknots | 3 3 0.1s sample_structures | 13 13 1.1s subopt | 13 13 0.6s subopt_all | 13 13 0.7s run_AllSub | 6 6 0.6s run_ct2dot | 4 4 0.1s run_CycleFold | 60 60 7.3s run_dot2ct | 20 20 0.4s run_draw | 6 6 0.1s run_EDcalculator | 6 6 0.6s run_efn2 | 6 6 2.9s run_EnsembleEnergy | 3 3 0.3s run_Fold | 3 3 0.1s run_MaxExpect | 4 4 1.2s run_partition! | 2 2 0.5s run_ProbabilityPlot | 2 2 0.7s run_RemovePseudoknots | 2 2 0.1s run_stochastic | 2 2 0.5s Testing RNAstructure tests passed Testing completed after 97.96s PkgEval succeeded after 126.45s