aboutsummaryrefslogtreecommitdiff
AgeCommit message (Collapse)AuthorLines
2020-05-23Some minor edits on Boud's recent correctionsMohammad Akhlaghi-12/+12
Generally they were great, but after looking through them I thought a hand-full of them slightly changed my original idea so I am correcting them here. Boud, if you feel the changes aren't good, let's talk about it and find the best way forward ;-). They are mostly clear from a '--word-diff', just some notes on the ones that have changed the meaning: * On the "a clerk can do it" quotation, since its so short, I think its better to keep its original form, otherwise a reader may thing there were paragraphs instead of the "to" and we have changed their intention. * In the part where we are saying that the workflow can get "separated" from the paper, I mostly meant to highlight that the data-centers and journals (hosts) may diverge in decades, or one of them may go bankrupt, or etc. Hence loosing the connection. The issue of it evolving can in theory be addressed through version control, so I think this is a more fundamental problem. * In the part about free software, in the list, the original point was the free software that are used by the project, not the project itself (after all, the project itself falls under the "Open Science" titles that is very fashionable these days, but my point here is to those people who claim to do "Open Science" with closed software (like Microsoft Excel!).
2020-05-23Section III edits - 5901 wordsBoud Roukema-43/+43
This commit makes several small changes to Section III, some of which are quite significant in terms of meaning. It was difficult to improve the clarity without extending the word length. Now we're at 5901 words.
2020-05-23Section II edits + definition of solutionsBoud Roukema-23/+23
This commit implements quite a few minor changes in section II. The aim of most is to clarify the meaning and remove ambiguity. A few changes are that the reader will normally assume that successive sentences in a paragraph are closely related in terms of logical flow. It is superfluous - and considered excessive - to put too many "Therefore"'s and "Hence"'s in (at least) modern astronomy style. These are supposed to be used when there is a strong chain of reasoning. One change is done in the Introduction, because if we're going to use "solution(s)" throughout to mean "reproducible workflow solution(s)", then we have to clearly define this as jargon for this particular paper. It's probably preferable to RWS - reproducible workflow solution - or RWI - reproducible workflow implementation. But we can't just keep saying "solution" because that has many different meanings in a scientific context. Pdf word count = 5880
2020-05-23Cherry-pick 7bf5fcd to make merging easierBoud Roukema-1/+1
This series of commits aims to edit sections II+III, but first implements the changes from 7bf5fcd, apart from one that conflicts in the abstract: this commit has ``Maneage'' without `(managing+lineage)` in the abstract.
2020-05-23Main text: implement most of David's changesBoud Roukema-31/+33
This commit implements most of David's changes from c76727b, but excluding some, such as the proposal to use 'which' in a restrictive clause in the abstract. This is allowed, but the Fowler brothers' rule tends to followed in science writing: https://ell.stackexchange.com/questions/5/is-there-any-difference-between-which-and-that A few points on the abstract: * an immediate solution = singular * The "immediate, fast short-term" benefits sentence sounded like it was redundantly superfluously repetitively repeating doubled-up information. Hopefully this edit is better. * in the %Conclusion, "solutions" is vague, like people who say "technology" when they're only talking about software, so this edit reminds the reader to make the sentence more self-contained and understandable.
2020-05-23New software: Valgrind and PatchBoud Roukema-1/+105
With this commit, Maneage now includes instructions to build the memory tracing tool Valgrind and the program 'patch' (to apply corrections/patches in text files and in particular the sources of programs). For this version of Valgrind, some patches were necessary for an interface with OpenMPI 2.x (which is the case now). Also note that this version of Valgrind's checks can fail with GCC 10.1.x (when using '--host-cc'), and the failures aren't due to internal problems but due to how the tests are designed (https://bugs.gentoo.org/707598). So currently if any of Valgrind's checks fail, Maneage still assumes that Valgrind was built and installed successfully. While testing on macOS, we noticed that it needs the macOS-specific 'mig' program which we can't build in Maneage. DESCRIPTION: The mig command invokes the Mach Interface Generator to generate Remote Procedure Call (RPC) code for client-server style Mach IPC from specification files. So a symbolic link to the system's 'mig' is now added to the project's programs on macOS systems. This commit's build of Patch and Valgrind has been tested on two GNU/Linux distributions (Debian and ArchLinux) as well as macOS. Work on this commit started by Boud Roukema, but also involved tests and corrections by Mohammad Akhlaghi and Raul Infante-Sainz.
2020-05-23Added TeXLive's ulem package to also be builtMohammad Akhlaghi-1/+1
David reported this problem, it happened right after importing IEEEtran, but for some reason, it didn't happen for me.
2020-05-23Corrected name of listings package when installing it with texliveMohammad Akhlaghi-1/+1
When entering the name of the "listings" package, I had forgot to add the final 's', so it wasn't being installed on a clean system! I didn't have a problem until now, because it remained from previous builds.
2020-05-23Biography style reverted to CiSE PDF mode (different from webpage)Mohammad Akhlaghi-18/+8
After a look at the PDFs of the linked papers of the previous commit and a few 2020 papers, we noticed that the biography format of the webpage and PDFs are different! So it is now back in its old way (which is how biographies are presented in the PDF). A few other minor edits were made in the text.
2020-05-23Affiliations CiSE styleBoud Roukema-6/+19
It appears from looking at https://ieeexplore.ieee.org/document/5725236/authors#authors https://ieeexplore.ieee.org/document/7878935/authors#authors that the affiliations section needs to start with a one-phrase definition of the author's main affiliation. In 5725236, the typesetters/proofreaders swapped van der Walt and Colbert, so don't be confused by that. It shows that nobody proofread properly. With this commit, each author's institute (single hierarchical level) is written as the first paragraph of the author's affiliation section. Since 5725236 allows a very-well-known acronym, I'm guessing that IAC can be defined for Mohammad and then re-used for the others. I've added a brief CV for me. If necessary, we could compress my main research together as "observational cosmology", but let's see how we go in the word count. I have not (yet) worked through the main text. There is also one minor language fix - `Because is complete` was incomplete. Pdf word count: 5873
2020-05-23Edits, to make the text more readableMohammad Akhlaghi-84/+81
After one day not looking at the first draft of this new version (commit 7b008dfbb9b2), I went through the text and done some general edits to make its presentation and logic smoother.
2020-05-23Typo and style corrections in the text, Roberto's bio addedRoberto Baena-Gallé-37/+41
Before this commit: several typos were present along the text. With this commit several typos have been corrected (types listed below) and my bio has been added. a) double words b) general typos c) comas after adverbs at the beginning of a sentence d) contractions are removed, e.g., don't vs do not e) three sentences in parenthesis have been removed since I think they were out of context or unnecessary f) etc
2020-05-23Corrected name of produced demonstration tableMohammad Akhlaghi-2/+2
In order to correspond to the updated datalineage plot, the name of the plotted columns was changed to 'columns.txt', but I had forgot to update it in the LaTeX source and since the old file still remained I hadn't noticed. This was found by Boud and corrected.
2020-05-22Software citation: removed abstract entry from BibTeX infoMohammad Akhlaghi-7/+0
Until now, two of the software BibTeX sources (Matplolib and Sympy) had an "abstract" entry that was long, not similar to the rest, and not relevant in this context, so they are removed with this commit.
2020-05-22Corrected copyright notices to fit GPL suggested formatMohammad Akhlaghi-240/+357
In time, some of the copyright license description had been mistakenly shortened to two paragraphs instead of the original three that is recommended in the GPL. With this commit, they are corrected to be exactly in the same three paragraph format suggested by GPL. The following files also didn't have a copyright notice, so one was added for them: reproduce/software/make/README.md reproduce/software/bibtex/healpix.tex reproduce/analysis/config/delete-me-num.conf reproduce/analysis/config/verify-outputs.conf
2020-05-22Re-write of the paper to fit in ~6000 words and IEEE formatMohammad Akhlaghi-159/+428
Following the fact that the DSJ editor decided that this paper doesn't fit into their scope, we decided to submit it to IEEE's Computing in Science and Engineering (CiSE). So with this commit the text was re-written to fit into their style and word-count limitations.
2020-05-08Added the option -e in the configure Gnuastro warning messageRaul Infante-Sainz-1/+1
Until this commit, when the version of Gnuastro doesn't match with the version that the project was designed to use, the warning message saying how to run the configure step was not showing the option `-e'. This situation is normal when updating the version of Gnuastro to the most recent one (with the project already configured). However, the use of this option is more convenient than giving the top-build directory, etc, every time. With this commit, the warning message has been changed in order show also the option `-e' in the re-configure of the project.
2020-05-08Installing Scamp with the option --enable-plplot=noRaul Infante-Sainz-1/+3
Until this commit, Scamp was installed with the option `--enable-plplot=yes' (the default). However, Maneage does not have PLplot included. As it is possible to install Scamp without PLplot (in that case it won't generate plots), with this commit this option has been set to `no'. As a consequence, Scamp will be installed even if the host system does not have PLplot without crashing (but it won't make any plot).
2020-05-08GNU Gettext built as a dependency of BashRaul Infante-Sainz-98/+69
Until now Maneage used the host's GNU Gettext if it was present. Gettext is a relatively low-level software that enables programs to print messages in different languages based on the host environment. Even though it has not direct effect on the running of the software for Maneage and the lanugage environment in Maneage is pre-determined, it is necessary to have it because if the basic programs see it in the host they will link with it and will have problems if/when the host's Gettext is updated. With this commit (which is actually a squashed rebase of 9 commits by Raul and Mohammad), Gettext and its two extra dependencies (libxml2 and libunistring) are now installed within Maneage as a basic software and built before GNU Bash. As a result, all programs built afterwards will successfully link with our own internal version of Gettext and libraries. To get this working, some of the basic software dependencies had to updated and re-ordered and it has been tested in both GNU/Linux and macoS. Some other minor issues that are fixed with this commit - Until this commit, when TeX was not installed, the warning message saying how to run the configure step in order to re-configure the project was not showing the option `-e'. However, the use of this option is more convenient than entering the top-build directory and etc every time. So with this commit, the warning message has been changed in order use the option `-e' in the re-configure of the project. - Until now, on macOS systems, Bash was not linking with our internally built `libncurses'. With this commit, this has been fixed by setting `--withcurses=yes' for Bash's configure script.
2020-05-06Corrected latex citation of sip_tpv program (no more \ before _)Mohammad Akhlaghi-1/+1
Until now there we had manually inserted a `\' before the `_' of sip_tpv program. However, we also recently added a step in the configure script to add a `\' before every `_' when writing the final LaTeX macro. This was because some C compilers (when the host's is used) have an `_' in their version that we had no control over. With this commit, the `\' is removed from `sip_tpv' in its build-rule and we let the backslash be inserted automatically.
2020-05-06Software are rebuilt automatically with change of versionMohammad Akhlaghi-227/+232
Until now, when you changed the version of a software in an already-built system, its tarball would be downloaded, but it wouldn't actually build. The only way would be to force the build by deleting the main target of that file (under `.local/version-info/TYPE/PROGRAM'). This was because the tarballs were an order-only prerequisite which was implemented some time ago based on some theoretical argument that if the tarball dates changes, the software should not be rebuilt (because we check the checksum). However, the problems this causes are more than those it solves: Users may forget to delete the main target of the program and mistakenly think that they are using the new version. The fact that all the numbers going into the paper also contain this number further hides this. With this commit, tarballs are no longer order-only and any time a version of a software is updated, it will be automatically built and not cause confusion and manual intervention by the users. As a result of this change, I also had to correct the way we find the tarball from the list of prerequisites.
2020-05-02First implementation of style in IEEEtran styleMohammad Akhlaghi-552/+830
The paper is no longer using LuaLaTeX, but raw LaTeX (that saves a DVI), it is so much faster! Initially I had used LuaLaTeX to use special fonts to resemble the CODATA Data Science Journal, but all that overhead is no longer necessary. Therefore I also removed the MANY extra LaTeX packages we were importing. The paper builds and is able to construct one of its images (the git-branching figure) with only 7 packages beyond the minimal TeX/LaTeX installation. Also in terms of processing it is so much faster. The text is just temporary now, and mainly just a place holder. With the next commit, I'll fill it with proper text.
2020-05-01Added a .gitattributes file to avoid merging some filesMohammad Akhlaghi-0/+6
As explained in the new `README-hacking.md', this files greatly helps in avoiding un-necessary conflicts.
2020-05-01Imported recent changes in Maneage, minor conflicts fixedMohammad Akhlaghi-651/+733
A few small conflicts showed up here and there. They are fixed with this merge.
2020-05-01Fixed OpenSSL deprecation bug on some OSs, causing problems in libgit2Boud Roukema-1/+16
Until this commit, the configure step would fail with an error when compiling libgit2 on a test system. The origin of this bug, on the OS that was tested, appears to be that in OpenSSL Version 1.1.1a, openssl/ec.h fails to include openssl/openconf.h. The bug is described in more detail at https://savannah.nongnu.org/bugs/index.php?58263 With this commit, this is fixed by manually inserting a necessary components. In particular, `sed` is used to insert a preprocessor instruction into `openssl/openconf.h`, defining `DEPRECATED_1_2_0(f)`, for an arbitrary section of code `f`, to include that code rather than exclude it or warn about it. This commit is valid provided that openssl remains at a version earlier than 1.2.0. Starting at version 1.2.0, deprecation warnings should be run normally. We have thus moved the version of OpenSSL in `versions.conf' to the section for programs that need to be manually checked for version updates with a note to remind the user when reaching that version. Other packages that use OpenSSL may benefit from this commit, not just libgit2.
2020-05-01Abstract: three minor language editsBoud Roukema-4/+4
The difference between `that` and `which` is not strictly required, but it helps clarify the difference in meaning, which is important in science and software :). This is best shown by an example: * Maneage provides reproducibility, which is a good thing. The sentence would make sense if we drop `, which is a good thing.` The last part of the sentence is a comment rather than a necessary part of the sentence. * Maneage provides a quality of reproducibility that is missing from other implementations. The sentence would not quite make sense if we drop `that is ...`, since we would not know what sort of quality is provided. The fact that the quality is missing is key to the intended meaning of the sentence.
2020-05-01Merged David's suggestions, further edited to be more clearMohammad Akhlaghi-7/+5
It is also slightly shorter with this commit, without loosing anything substantial.
2020-05-01Minor edits in abstractDavid Valls-Gabaud-7/+7
No need to invent a new word (archive-able) when an existing one (archivable) does the job. One issue that we have not included and which perhaps we could discuss in the paper (space permitting), is that this tool could bypass the use of blockchains in this context.
2020-05-01Minor edits in abstract, link between analysis and narrative addedMohammad Akhlaghi-3/+3
As discussed by Boud in the previous commit, this is an important feature that was lost in the new abstract. So I added it as a criteria.
2020-05-01Several minor edits to the title + abstractBoud Roukema-12/+13
Most are minor English tidying, e.g. * spelling: achieving * archivable - https://en.wiktionary.org/wiki/archivable * `i.e.` does not look good in an abstract; * `when` didn't sound quite right; Comment: we no longer state one of the most interesting aspects of Maneage - producing the draft paper that is submittable for peer review in a way that makes it natural for the authors to achieve automatic consistency between the calculations/analysis and the values in the paper. But this is hard to describe in a compact way without disrupting the overall argument of the abstract, so it's a bit of a pity, but people will learn about it anyway from the body of the article (or from trying out the package!) `Peer-review verification` does not directly state producing a pdf. Related to this absence of talking about reproducing the *paper*, not just the calculations, I suggest dropping `, with snapshot \projectversion` from the abstract initially sent to the journal (they can't stop us updating it afterwards), because without the context of explaining that the paper itself is produced from the package, it's not clear what the snapshot means - a snapshot of the abstract? In the `real` paper, it makes sense, because the reader will have access to the rest of the paper.
2020-05-01Edited abstract for more clarity, still in the 250 word limitMohammad Akhlaghi-28/+15
Boud's suggestions in the previous commit were great and really helped in improving the tone of the abstract (and thus the whole paper shortly!), better putting it in the big picture. I had forgot to give the exact word limit (which was 250), so Boud had set it to a very conservative value of 190, I added around 22 words to better highlight the points we want to make, while still being below the limit.
2020-05-01Abstract re-organized to be more research-orientedBoud Roukema-7/+28
To make this a research article, we either have to present it as a theoretical advance, or as an empirical advance. An empirical research result would be something like doing a survey of users and getting statistics of their success/failure in using the system, and of whether their experience is consistent with the claimed properties and principles of Maneage (e.g. success/failure in creating paper.pdf as expected? was the user's system POSIX? did the user do the install with non-root privileges? was this a with-network or without-network ./project configure ?) This is doable, but would require a bit of extra work that we are not necessarily motivated to do or have the time to do right now. I think it's possible to present Maneage as a theoretical advance, but it has to be worded properly. Maneage is a tool, but it's a tool that satisfies what we can reasonably present as a unique theoretical proposal. Here's my proposed rewrite. I've aimed at minimum word length. I've also included (commented out) keywords for a structured research abstract - these are just for us, as a guideline to improve the abstract. I think "criteria" is safer than "standards". Whether a principle is good or bad tends to lead to debate. Whether a criterion is satisfied or not is a more objective question, independent of whether you agree with the criterion or not. In the rewrite below, we propose a theoretical standard and show that the new standard can be satisfied. Maneage is *used as a tool* to prove that the standard is not too difficult to achieve. Maneage is no longer the subject of the paper. (That won't change the main body of the paper too much, apart from compression, but the way it's presented will have to change, under this proposal.) The title would need to match this. E.g. TITLE.1: Evidence that a higher standard of reproducibility criteria is attainable TITLE.2: Evidence that a rigorous standard of reproducibility criteria is attainable TITLE.3: Towards a more rigorous standard of reproducibility criteria I would probably go for TITLE.3.
2020-05-01Abstract re-written to better highlight the uniqueness of ManeageMohammad Akhlaghi-9/+9
This abstract is a first step in order to put more focus on the research aspects of Maneage.
2020-05-01Removed Definition and Summary sections and low-level figuresMohammad Akhlaghi-129/+19
Given the very strict limits of journals, we needed to remove these sections and images. The removed images are: the `figure-file-architecture', `figure-src-topmake' and `figure-src-inputconf'. In total, with `wc' we now have 9019 words. This will be futher reduced when we remove all the technical parts of the Maneage section, in short, we will only describe the generalities, not any specific details.
2020-05-01Added interesting references by DavidMohammad Akhlaghi-0/+31
David suggested some interesting references in particular about the problems with Juypyter notebooks that are now added to the long version of the paper. We'll later decide if/how they can be used.
2020-04-29Reactivated --host-cc config option to use host C compilerMohammad Akhlaghi-5/+23
Until now, if GCC couldn't be built for any reason, Maneage would crash and the user had no way forward. Since GCC is complicated, it may happen and is frustrating to wait until the bug is fixed. Also, while debugging Maneage, when we know GCC has no problem, because it takes so long, it discourages testing. With this commit, we have re-activated the `--host-cc' option. It was already defined in the options of `./project', but its affect was nullified by hard-coding it to zero in the configure script on GNU/Linux systems. So with this commit that has been removed and the user can use their own C compiler on a GNU/Linux operating system also. Furthermore, to inform the user about this option and its usefulness, when GCC fails to build, a clear warning message is printed, instructing the user to post the problem as a bug and telling them how to continue building the project with the `--host-cc' option.
2020-04-28Better explanation at the end of the configurationMohammad Akhlaghi-4/+8
Until now, at the end of the configuration step, we would tell the user this: "To change the configuration later, please re-run './project configure', DO NOT manually edit the relevant files". However, as Boud suggested in Bug #58243, this is against our principle to encourage users to modify Maneage. With this commit, that explanation has been expanded by a few sentences to tell the users what to change and warn them in case they decide to change the build-directory.
2020-04-28Astropy will no longer be installed by defaultMohammad Akhlaghi-24/+31
Until now Gnuastro and Astropy where installed by default in any clean build of Maneage. Gnuastro is used to do the demonstration analysis that is reported in the paper and Astropy was just there to help in testing the building of the MANY tools it depends on! It (and its dependencies) also had several papers that helped show software citation. However, as Boud suggested in task #15619, the burden of installing them for a new user may be too much and any future changes will cause merge conflicts. It may also give the impression that Maneage is only/mainly written for astronomers. So with this commit, I am removing Astropy as a default target. But we can only remove Gnuastro after we include an alternative analysis in the demonstration `delete-me' files. Following Boud's suggestion in that task, `TARGETS.conf' was also added to the files to be ignored in any future merge (in the checklist of `README-hacking.mk'). The solution was already described there, but mainly focused on the deleted `delete-me' files. So with this commit, I brought out this item as a more prominent item in the list. Maybe we can later add the analysis done in the Maneage paper (not yet published). In terms of testing the software builds, we already have task #15272 (Single target to build all high-level software, for testing) that aims to have a single configure option to install ALL high-level software and we can ask people to try if they like and report errors.
2020-04-28Configration bug fixed: other problematic software names from tarballBoud Roukema-5/+4
Similar to the previous commit (e43e3291483699), following a change made yesterday in the identification of software names from their tarballs, a few other problematic names are corrected with this commit: `apr-util', HDF5, TeX Live's installation tarball and `rpcsvc-proto'. Even though we have visually checked the list of software, other unidentified similar cases may remain and will be fixed when found in practice.
2020-04-28Configration bug fixed: identify pkg-config from its tarball nameBoud Roukema-1/+1
Until Commit 3409a54 (from yesterday), pkg-config was found correctly in `reproduce/software/make/basic.mk` by searching for `pkg`. However, commit a21ea20 made an improvement in the regular expression for relating package names and download filenames, and the string `pkg-config` with the new regex no longer simplifies to `pkg`. The result of this was that the basic.mk could not find `pkg-config` in the list of packages, since it was still listed as `pkg`. This blocked downloading for a system without pkg-config preloaded. With this commit (of just a few bytes), the bug is fixed.
2020-04-27Aborting with informative error when GNU gettext not foundMohammad Akhlaghi-1/+39
Until now, we wouldn't explicity check for GNU gettext. If it was present on the system, we would just add a link to it in Maneage's installation directory. However, in bug #58248, Boud noticed that Git (a basic software) actually needs it to complete its installation. Unfortunately we haven't had the tiem to include a build of Gettext in Maneage. Because it is mostly available on many systems, it hasn't been reported too commonly, it also has many dependencies which make it a little time consuming to install. So with this commit, we actually check for GNU gettext right after checking the compiler and if its not available an informative error message is written to inform the user of the problem, along with suggestions on fixing it (how to install GNU gettext from their package manager).
2020-04-27Thanked Fabrizio, Tamara and Nadia for their supportMohammad Akhlaghi-1/+4
They supported my visit and talk on Maneage at the Barcelona Super Computing center. They have also offerred to read the paper and are providing comments. Also, I noticed that in the author list, we had forgot to put an `,' after Boud's name. That is also corrected here.
2020-04-27Configuration: improved version separation from tarball nameBoud Roukema-27/+36
Until now, the sed script for determining URL download rules in the three software building Makefiles (`basic.mk', `high-level.mk' and `python.mk') considered package names such as `fftw-3...` and `fftw2-2.1...` to be identical. As the example above shows, this would make it hard to include some software that may hav conflicting non-number names. With this commit, the SED script that is used to separate the version from the tarball name only matches numbers that are after a dash (`-'). Therefore considers `fftw-3...` and `fftw-2...` to be identical, but `fftw-3-...` and `fftw2-2.1...` to be different. As a result of this change, the `elif' check for some of the other programs like `m4', or `help2man' was also corrected in all three Makefiles. While doing this check on all the software, we noticed that `zlib-version' is being repeated two times in `version.conf' so it was removed. It caused no complications, because both were the same number, but could lead to bugs later.
2020-04-26README-hacking.md: described why automatic preparation only occurs onceZahra Sharbaf-1/+20
Recently (since Commit 7d0c5ef77), the preparation is not run automatically every time. It is only run automatically the first time and needs to be manually called with the `--prepare-redo' option. But this wasn't explained in `README-hacking.md' (currently the main documentation of Maneage). With this commit, a description about invoking the preparation process after the first attempt of the running project has been added to `README-hacking.md'.
2020-04-26Corrected Gnuastro configuration directory in initialize.mkZahra Sharbaf-1/+1
Recently (in Commit 8eb0892e) the Gnuastro configuration files moved under "reproduce/analysis/config/gnuastro" directory (before that they were in `reproduce/software/config/gnuastro)'. But this hadn't been reflected in it the variable that defines this directory in `initialize.mk'. With this commit, the address of the Gnuastro configuration files directory is corrected, allowing Gnuastro programs to operate properly when it is used.
2020-04-26verify-outputs.conf: typo correction in comment to avoid confusionBoud Roukema-1/+1
Until now, the comment in the file said that setting the `verify-outputs` variable to `yes` disables the verification. Looking at `reproduce/analysis/make/verify.mk` shows that the opposite is true. With this commit, the word `disable` is replaced with `enable` so that the user is not confused by the conflict between the source code in the other file and this comment.
2020-04-26Configure.sh: build directory checked for ability to modify permissionsPedram Ashofteh Ardakani-11/+81
Until now we only checked for the existance and write-ability of the build directory. But we recently discovered that if the specified build-directory is in a non-POSIX compatible partition (for example NTFS), permissions can't be modified and this can cause crashs in some programs (in particular, while building Perl, see [1]). The thing that makes this problem hard to identify is that on such partitions, `chmod' will still return 0 (so it was hard to find). With this commit, a check has been added after the user specifies the build-directory. If the proposed build directory is not able to handle permissions as expected, the configure script will not continue and will let the user know and will ask them for another directory. Also, the two printed characters at the start of error messages were changed to `**' (instead of `--'). When everything is good, we'll use `--' to tell the user that their given directory will be used as the build directory. And since there are multiple checks now, the final message to specify a new build directory is now moved to the end and not repeated in every check. [1] https://savannah.nongnu.org/support/?110220
2020-04-25Demonstration cloning URL set to https://git.maneage.org/project.gitMohammad Akhlaghi-2/+2
Until now, we were using GitLab as the main Git repository of Maneage. But today I finally setup our own Git repository under `git.maneage.org' and enabled a CGit web interface for a simple and fast viewing of the commits and changes. Since this URL is under our own control, we can always ensure that it will point to somewhere meaningful, on any server so in the long-run its much better than publishing the paper an explicit reliance of `gitlab.com'.
2020-04-25IMPORTANT: Primary Maneage repositories are now under maneage.orgMohammad Akhlaghi-29/+24
Until now, the primary Maneage URLs were under GitLab, but since we now have a dedicated URL and Git repository, its better to transfer to this as soon as possible. Therefore with this commit, throughout Maneage, any place that Maneage was referenced through GitLab has been corrected. Please correct your project's remote to point to the new repository at `git.maneage.org/project.git', and please make sure it follows the `maneage' branch. There is no more `master' branch on Maneage.
2020-04-24TypoBoud Roukema-1/+1