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2013-12-27Remove the line length limit for graft filesLibravatar Johannes Schindelin1-4/+4
Support for grafts predates Git's strbuf, and hence it is understandable that there was a hard-coded line length limit of 1023 characters (which was chosen a bit awkwardly, given that it is *exactly* one byte short of aligning with the 41 bytes occupied by a commit name and the following space or new-line character). While regular commit histories hardly win comprehensibility in general if they merge more than twenty-two branches in one go, it is not Git's business to limit grafts in such a way. In this particular developer's case, the use case that requires substantially longer graft lines to be supported is the visualization of the commits' order implied by their changes: commits are considered to have an implicit relationship iff exchanging them in an interactive rebase would result in merge conflicts. Thusly implied branches tend to be very shallow in general, and the resulting thicket of implied branches is usually very wide; It is actually quite common that *most* of the commits in a topic branch have not even one implied parent, so that a final merge commit has about as many implied parents as there are commits in said branch. [jc: squashed in tests by Jonathan] Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de> Reviewed-by: Jonathan Nieder <jrnieder@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-12-17Merge branch 'nd/magic-pathspec' into maintLibravatar Junio C Hamano1-10/+7
"git diff -- ':(icase)makefile'" was unnecessarily rejected at the command line parser. * nd/magic-pathspec: diff: restrict pathspec limitations to diff b/f case only
2013-12-17cmd_repack(): remove redundant local variable "nr_packs"Libravatar Michael Haggerty1-4/+2
Its value is the same as the number of entries in the "names" string_list, so just use "names.nr" in its place. Signed-off-by: Michael Haggerty <mhagger@alum.mit.edu> Acked-by: Stefan Beller <stefanbeller@googlemail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-11-20diff: restrict pathspec limitations to diff b/f case onlyLibravatar Nguyễn Thái Ngọc Duy1-10/+7
builtin_diff_b_f() needs a path, not pathspec. Other modes in diff can deal with pathspec just fine. But because of the current GUARD_PATHSPEC() location, other modes also reject :(glob) and :(icase). Move GUARD_PATHSPEC(), and the "path" assignment statement, which is the reason of this GUARD_PATHSPEC(), inside builtin_diff_b_f(). Signed-off-by: Nguyễn Thái Ngọc Duy <pclouds@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-11-18Merge branch 'nd/literal-pathspecs'Libravatar Junio C Hamano1-1/+3
Fixes a regression on 'master' since v1.8.4. * nd/literal-pathspecs: pathspec: stop --*-pathspecs impact on internal parse_pathspec() uses
2013-11-18Merge branch 'jx/branch-vv-always-compare-with-upstream'Libravatar Junio C Hamano1-1/+7
Hot-fix for a regression. * jx/branch-vv-always-compare-with-upstream: branch: fix --verbose output column alignment
2013-11-18branch: fix --verbose output column alignmentLibravatar Torstein Hegge1-1/+7
Commit f2e0873 (branch: report invalid tracking branch as gone) removed an early return from fill_tracking_info() in the path taken when 'git branch -v' lists a branch in sync with its upstream. This resulted in an unconditionally added space in front of the subject line: $ git branch -v * master f5eb3da commit pushed to upstream topic f935eb6 unpublished topic Instead, only add the trailing space if a decoration have been added. To catch this kind of whitespace breakage in the tests, be a bit less smart when filtering the output through sed. Signed-off-by: Torstein Hegge <hegge@resisty.net> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-11-06Merge branch 'fc/trivial'Libravatar Junio C Hamano4-16/+7
A random collection of style fixes and minor doc updates. * fc/trivial: setup: trivial style fixes run-command: trivial style fixes diff: trivial style fix revision: trivial style fixes pretty: trivial style fix describe: trivial style fixes transport-helper: trivial style fix sha1-name: trivial style cleanup branch: trivial style fix revision: add missing include doc/pull: clarify the illustrations t: replace pulls with merges merge: simplify ff-only option
2013-11-01Merge branch 'jk/reset-p-current-head-fix'Libravatar Junio C Hamano1-1/+1
"git reset -p HEAD" has codepath to special case it from resetting to contents of other commits, but recent change broke it. * jk/reset-p-current-head-fix: reset: pass real rev name to add--interactive add-interactive: handle unborn branch in patch mode
2013-11-01Merge branch 'jk/for-each-ref-skip-parsing'Libravatar Junio C Hamano1-9/+20
* jk/for-each-ref-skip-parsing: for-each-ref: avoid loading objects to print %(objectname)
2013-11-01Merge branch 'jl/submodule-mv'Libravatar Junio C Hamano1-4/+9
Moving a regular file in a repository with a .gitmodules file was producing a warning 'Could not find section in .gitmodules where path=<filename>'. * jl/submodule-mv: mv: Fix spurious warning when moving a file in presence of submodules
2013-10-31diff: trivial style fixLibravatar Felipe Contreras1-1/+1
Signed-off-by: Felipe Contreras <felipe.contreras@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-31describe: trivial style fixesLibravatar Felipe Contreras1-4/+3
Signed-off-by: Felipe Contreras <felipe.contreras@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-31branch: trivial style fixLibravatar Felipe Contreras1-2/+1
Signed-off-by: Felipe Contreras <felipe.contreras@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-31merge: simplify ff-only optionLibravatar Felipe Contreras1-9/+2
No functional changes. Signed-off-by: Felipe Contreras <felipe.contreras@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-30Merge branch 'nd/lift-path-max'Libravatar Junio C Hamano1-1/+1
* nd/lift-path-max: checkout_entry(): clarify the use of topath[] parameter entry.c: convert checkout_entry to use strbuf
2013-10-30Merge branch 'nd/gc-lock-against-each-other'Libravatar Junio C Hamano1-0/+24
* nd/gc-lock-against-each-other: gc: remove gc.pid file at end of execution
2013-10-30Merge branch 'mm/checkout-auto-track-fix'Libravatar Junio C Hamano1-28/+71
"git checkout topic", when there is not yet a local "topic" branch but there is a unique remote-tracking branch for a remote "topic" branch, pretended as if "git checkout -t -b topic remote/$r/topic" (for that unique remote $r) was run. This hack however was not implemented for "git checkout topic --". * mm/checkout-auto-track-fix: checkout: proper error message on 'git checkout foo bar --' checkout: allow dwim for branch creation for "git checkout $branch --"
2013-10-30Merge branch 'fc/styles'Libravatar Junio C Hamano3-3/+3
C coding style fixes. * fc/styles: block-sha1/sha1.c: have SP around arithmetic operators base85.c: have SP around arithmetic operators archive.c: have SP around arithmetic operators alloc.c: have SP around arithmetic operators abspath.c: have SP around arithmetic operators alias: have SP around arithmetic operators C: have space around && and || operators
2013-10-30for-each-ref: avoid loading objects to print %(objectname)Libravatar Jeff King1-9/+20
If you ask for-each-ref to print each ref and its object, like: git for-each-ref --format='%(objectname) %(refname)' this should involve little more work than looking at the ref files (and packed-refs) themselves. However, for-each-ref will actually load each object from disk just to print its sha1. For most repositories, this isn't a big deal, but it can be noticeable if you have a large number of refs to print. Here are best-of-five timings for the command above on a repo with ~10K refs: [before] real 0m0.112s user 0m0.092s sys 0m0.016s [after] real 0m0.014s user 0m0.012s sys 0m0.000s This patch checks for %(objectname) and %(objectname:short) before we actually parse the object (and the rest of the code is smart enough to avoid parsing if we have filled all of our placeholders). Note that we can't simply move the objectname parsing code into the early loop. If the "deref" form %(*objectname) is used, then we do need to parse the object in order to peel the tag. So instead of moving the code, we factor it out into a separate function that can be called for both cases. While we're at it, we add some basic tests for the dereferenced placeholders, which were not tested at all before. This helps ensure we didn't regress that case. Signed-off-by: Jeff King <peff@peff.net> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-28pathspec: stop --*-pathspecs impact on internal parse_pathspec() usesLibravatar Nguyễn Thái Ngọc Duy1-1/+3
Normally parse_pathspec() is used on command line arguments where it can do fancy thing like parsing magic on each argument or adding magic for all pathspecs based on --*-pathspecs options. There's another use of parse_pathspec(), where pathspec is needed, but the input is known to be pure paths. In this case we usually don't want --*-pathspecs to interfere. And we definitely do not want to parse magic in these paths, regardless of --literal-pathspecs. Add new flag PATHSPEC_LITERAL_PATH for this purpose. When it's set, --*-pathspecs are ignored, no magic is parsed. And if the caller allows PATHSPEC_LITERAL (i.e. the next calls can take literal magic), then PATHSPEC_LITERAL will be set. This fixes cases where git chokes when GIT_*_PATHSPECS are set because parse_pathspec() indicates it won't take any magic. But GIT_*_PATHSPECS add them anyway. These are export GIT_LITERAL_PATHSPECS=1 git blame -- something git log --follow something git log --merge "git ls-files --with-tree=path" (aka parse_pathspec() in overlay_tree_on_cache()) is safe because the input is empty, and producing one pathspec due to PATHSPEC_PREFER_CWD does not take any magic into account. Signed-off-by: Nguyễn Thái Ngọc Duy <pclouds@gmail.com> Acked-by: Jeff King <peff@peff.net> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-25reset: pass real rev name to add--interactiveLibravatar Jeff King1-1/+1
The add--interactive --patch mode adjusts the UI based on whether we are pulling changes from HEAD or elsewhere (in the former case it asks to unstage the reverse hunk, rather than apply the forward hunk). Commit 166ec2e taught reset to work on an unborn branch, but in doing so, switched to always providing add--interactive with the sha1 rather than the symbolic name. This meant we always used the "apply" interface, even for "git reset -p HEAD". We can fix this by passing the symbolic name to add--interactive. Since it understands unborn branches these days, we do not even have to cover this special case ourselves; we can simply pass HEAD. The tests in t7105 now check that the right interface is used in each circumstance (and notice the regression from 166ec2e we are fixing). The test in t7106 checks that we get this right for the unborn case, too (not a regression, since it didn't work at all before, but a nice improvement). Signed-off-by: Jeff King <peff@peff.net> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-24checkout_entry(): clarify the use of topath[] parameterLibravatar Junio C Hamano1-1/+1
The said function has this signature: extern int checkout_entry(struct cache_entry *ce, const struct checkout *state, char *topath); At first glance, it might appear that the caller of checkout_entry() can specify to which path the contents are written out by the last parameter, and it is tempting to add "const" in front of its type. In reality, however, topath[] is to point at a buffer to store the temporary path generated by the callchain originating from this function, and the temporary path is always short, much shorter than the buffer prepared by its only caller in builtin/checkout-index.c. Document the code a bit to clarify so that future callers know how to use the function better. Noticed-by: Nguyễn Thái Ngọc Duy <pclouds@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-23Merge branch 'hu/cherry-pick-previous-branch'Libravatar Junio C Hamano1-2/+2
"git cherry-pick" without further options would segfault. Could use a follow-up to handle '-' after argv[1] better. * hu/cherry-pick-previous-branch: cherry-pick: handle "-" after parsing options
2013-10-23Merge branch 'mg/more-textconv'Libravatar Junio C Hamano3-18/+39
Make "git grep" and "git show" pay attention to --textconv when dealing with blob objects. * mg/more-textconv: grep: honor --textconv for the case rev:path grep: allow to use textconv filters t7008: demonstrate behavior of grep with textconv cat-file: do not die on --textconv without textconv filters show: honor --textconv for blobs diff_opt: track whether flags have been set explicitly t4030: demonstrate behavior of show with textconv
2013-10-23Merge branch 'jc/pack-objects'Libravatar Junio C Hamano1-11/+12
* jc/pack-objects: pack-objects: shrink struct object_entry
2013-10-18Merge branch 'sb/repack-in-c'Libravatar Junio C Hamano1-0/+388
Rewrite "git repack" in C. * sb/repack-in-c: repack: improve warnings about failure of renaming and removing files repack: retain the return value of pack-objects repack: rewrite the shell script in C
2013-10-18Merge branch 'jk/clone-progress-to-stderr'Libravatar Junio C Hamano1-23/+21
Some progress and diagnostic messages from "git clone" were incorrectly sent to the standard output stream, not to the standard error stream. * jk/clone-progress-to-stderr: clone: always set transport options clone: treat "checking connectivity" like other progress clone: send diagnostic messages to stderr
2013-10-18checkout: proper error message on 'git checkout foo bar --'Libravatar Matthieu Moy1-5/+16
The previous code was detecting the presence of "--" by looking only at argument 1. As a result, "git checkout foo bar --" was interpreted as an ambiguous file/revision list, and errored out with: error: pathspec 'foo' did not match any file(s) known to git. error: pathspec 'bar' did not match any file(s) known to git. error: pathspec '--' did not match any file(s) known to git. This patch fixes it by walking through the argument list to find the "--", and now complains about the number of references given. Signed-off-by: Matthieu Moy <Matthieu.Moy@imag.fr> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-18checkout: allow dwim for branch creation for "git checkout $branch --"Libravatar Matthieu Moy1-23/+55
The "--" notation disambiguates files and branches, but as a side-effect of the previous implementation, also disabled the branch auto-creation when $branch does not exist. A possible scenario is then: git checkout $branch => fails if $branch is both a ref and a file, and suggests -- git checkout $branch -- => refuses to create the $branch This patch allows the second form to create $branch, and since the -- is provided, it does not look for file named $branch. Signed-off-by: Matthieu Moy <Matthieu.Moy@imag.fr> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-18gc: remove gc.pid file at end of executionLibravatar Jonathan Nieder1-0/+24
This file isn't really harmful, but isn't useful either, and can create minor annoyance for the user: * It's confusing, as the presence of a *.pid file often implies that a process is currently running. A user running "ls .git/" and finding this file may incorrectly guess that a "git gc" is currently running. * Leaving this file means that a "git gc" in an already gc-ed repo is no-longer a no-op. A user running "git gc" in a set of repositories, and then synchronizing this set (e.g. rsync -av, unison, ...) will see all the gc.pid files as changed, which creates useless noise. This patch unlinks the file after the garbage collection is done, so that gc.pid is actually present only during execution. Future versions of Git may want to use the information left in the gc.pid file (e.g. for policies like "don't attempt to run a gc if one has already been ran less than X hours ago"). If so, this patch can safely be reverted. For now, let's not bother the users. Explained-by: Matthieu Moy <Matthieu.Moy@imag.fr> Signed-off-by: Jonathan Nieder <jrnieder@gmail.com> Improved-by: Nguyễn Thái Ngọc Duy <pclouds@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-17Merge branch 'jk/trailing-slash-in-pathspec'Libravatar Junio C Hamano2-18/+10
Code refactoring. * jk/trailing-slash-in-pathspec: reset: handle submodule with trailing slash rm: re-use parse_pathspec's trailing-slash removal
2013-10-17Merge branch 'ap/commit-author-mailmap' into maintLibravatar Junio C Hamano1-1/+7
* ap/commit-author-mailmap: commit: search author pattern against mailmap
2013-10-16C: have space around && and || operatorsLibravatar Junio C Hamano3-3/+3
Correct all hits from git grep -e '\(&&\|||\)[^ ]' -e '[^ ]\(&&\|||\)' -- '*.c' i.e. && or || operators that are followed by anything but a SP, or that follow something other than a SP or a HT, so that these operators have a SP around it when necessary. We usually refrain from making this kind of a tree-wide change in order to avoid unnecessary conflicts with other "real work" patches, but in this case, the end result does not have a potentially cumbersome tree-wide impact, while this is a tree-wide cleanup. Fixes to compat/regex/regcomp.c and xdiff/xemit.c are to replace a HT immediately after && with a SP. This is based on Felipe's patch to bultin/symbolic-ref.c; I did all the finding out what other files in the whole tree need to be fixed and did the fix and also the log message while reviewing that single liner, so any screw-ups in this version are mine. Signed-off-by: Felipe Contreras <felipe.contreras@gmail.com> Signed-off-by: Junio C Hamano <gitster@pobox.com>
2013-10-15Merge branch 'maint'Libravatar Junio C Hamano1-0/+4
* maint: git-prune-packed.txt: fix reference to GIT_OBJECT_DIRECTORY clone --branch: refuse to clone if upstream repo is empty
2013-10-14clone --branch: refuse to clone if upstream repo is emptyLibravatar Ralf Thielow1-0/+4
Since 920b691 (clone: refuse to clone if --branch points to bogus ref) we refuse to clone with option "-b" if the specified branch does not exist in the (non-empty) upstream. If the upstream repository is empty, the branch doesn't exist, either. So refuse the clone too. Reported-by: Robert Mitwicki <robert.mitwicki@opensoftware.pl> Signed-off-by: Ralf Thielow <ralf.thielow@gmail.com> Acked-by: Nguyễn Thái Ngọc Duy <pclouds@gmail.com> Signed-off-by: Jonathan Nieder <jrnieder@gmail.com>
2013-10-14Merge branch 'po/remote-set-head-usage'Libravatar Jonathan Nieder1-2/+2
* po/remote-set-head-usage: remote set-head -h: add long options to synopsis remote doc: document long forms of set-head options
2013-10-13mv: Fix spurious warning when moving a file in presence of submodulesLibravatar Jens Lehmann1-4/+9
In commit 0656781fa "git mv" learned to update the submodule path in the .gitmodules file when moving a submodule in the work tree. But since that commit update_path_in_gitmodules() gets called no matter if we moved a submodule or a regular file, which is wrong and leads to a bogus warning when moving a regular file in a repo containing a .gitmodules file: warning: Could not find section in .gitmodules where path=<filename> Fix that by only calling update_path_in_gitmodules() when moving a submodule. To achieve that, we introduce the special SUBMODULE_WITH_GITDIR define to distinguish the cases where we also have to connect work tree and git directory from those where we only need to update the .gitmodules setting. A test for submodules using a .git directory together with a .gitmodules file has been added to t7001. Even though newer git versions will always use a gitfile when cloning submodules, repositories cloned with older git versions will still use this layout. Reported-by: Matthieu Moy <Matthieu.Moy@grenoble-inp.fr> Signed-off-by: Jens Lehmann <Jens.Lehmann@web.de> Signed-off-by: Jonathan Nieder <jrnieder@gmail.com>
2013-10-10cherry-pick: handle "-" after parsing optionsLibravatar Jeff King1-2/+2
Currently, we only try converting argv[1] from "-" into "@{-1}". This means we do not notice "-" when used together with an option. Worse, when "git cherry-pick" is run with no options, we segfault. Fix this by doing the substitution after we have checked that there is something in argv to cherry-pick and know any remaining options are meant for the revision-listing machinery. This still does not handle "-" after the first non-cherry-pick option. For example, git cherry-pick foo~2 - bar~5 and git cherry-pick --no-merges - will still dump usage. Reported-by: Stefan Beller <stefanbeller@googlemail.com> Signed-off-by: Jeff King <peff@peff.net> Signed-off-by: Jonathan Nieder <jrnieder@gmail.com>
2013-09-27remote set-head -h: add long options to synopsisLibravatar Philip Oakley1-2/+2
Document --auto and --delete alongside their short forms -a and -d in the first line of 'git remote set-head -h' output. Signed-off-by: Philip Oakley <philipoakley@iee.org> Signed-off-by: Jonathan Nieder <jrnieder@gmail.com>
2013-09-24Merge branch 'cc/replace-with-the-same-type'Libravatar Jonathan Nieder1-3/+13
* cc/replace-with-the-same-type: Doc: 'replace' merge and non-merge commits t6050-replace: use some long option names replace: allow long option names Documentation/replace: add Creating Replacement Objects section t6050-replace: add test to clean up all the replace refs t6050-replace: test that objects are of the same type Documentation/replace: state that objects must be of the same type replace: forbid replacing an object with one of a different type
2013-09-24Merge branch 'jk/shortlog-tolerate-broken-commit'Libravatar Jonathan Nieder1-2/+4
* jk/shortlog-tolerate-broken-commit: shortlog: ignore commits with missing authors
2013-09-24clone: add a period after "done" to end the sentenceLibravatar Sebastian Schuberth1-1/+1
We have a period in other places after "done" (see e.g. clone_local), so we should have one here, too. Signed-off-by: Sebastian Schuberth <sschuberth@gmail.com> Signed-off-by: Jonathan Nieder <jrnieder@gmail.com>
2013-09-20Merge branch 'dw/check-ignore-sans-index'Libravatar Junio C Hamano1-2/+4
"git check-ignore" follows the same rule as "git add" and "git status" in that the ignore/exclude mechanism does not take effect on paths that are already tracked. With "--no-index" option, it can be used to diagnose which paths that should have been ignored have been mistakenly added to the index. * dw/check-ignore-sans-index: check-ignore: Add option to ignore index contents
2013-09-20Merge branch 'mm/commit-template-squelch-advice-messages'Libravatar Junio C Hamano1-8/+17
From the commit log template, remove irrelevant "advice" messages that are shared with "git status" output. * mm/commit-template-squelch-advice-messages: commit: disable status hints when writing to COMMIT_EDITMSG wt-status: turn advice_status_hints into a field of wt_status commit: factor status configuration is a helper function
2013-09-20Merge branch 'bk/refs-multi-update'Libravatar Junio C Hamano8-9/+261
Give "update-refs" a "--stdin" option to read multiple update requests and perform them in an all-or-none fashion. * bk/refs-multi-update: update-ref: add test cases covering --stdin signature update-ref: support multiple simultaneous updates refs: add update_refs for multiple simultaneous updates refs: add function to repack without multiple refs refs: factor delete_ref loose ref step into a helper refs: factor update_ref steps into helpers refs: report ref type from lock_any_ref_for_update reset: rename update_refs to reset_refs
2013-09-20Merge branch 'hu/cherry-pick-previous-branch'Libravatar Junio C Hamano1-0/+2
Just like "git checkout -" knows to check out and "git merge -" knows to merge the branch you were previously on, "git cherry-pick" now understands "git cherry-pick -" to pick from the previous branch. * hu/cherry-pick-previous-branch: cherry-pick: allow "-" as abbreviation of '@{-1}'
2013-09-20Merge branch 'mm/status-without-comment-char'Libravatar Junio C Hamano2-4/+14
"git status" now omits the prefix to make its output a comment in a commit log editor, which is not necessary for human consumption. We may want to tighten the output to omit unnecessary trailing blank lines, but that does not have to be in the scope of this series. * mm/status-without-comment-char: t7508: avoid non-portable sed expression status: add missing blank line after list of "other" files tests: don't set status.displayCommentPrefix file-wide status: disable display of '#' comment prefix by default submodule summary: ignore --for-status option wt-status: use argv_array API builtin/stripspace.c: fix broken indentation
2013-09-20Merge branch 'jx/branch-vv-always-compare-with-upstream'Libravatar Junio C Hamano1-15/+21
"git branch -v -v" (and "git status") did not distinguish among a branch that does not build on any other branch, a branch that is in sync with the branch it builds on, and a branch that is configured to build on some other branch that no longer exists. * jx/branch-vv-always-compare-with-upstream: status: always show tracking branch even no change branch: report invalid tracking branch as gone
2013-09-20Merge branch 'nd/fetch-into-shallow'Libravatar Junio C Hamano2-2/+2
When there is no sufficient overlap between old and new history during a fetch into a shallow repository, we unnecessarily sent objects the sending side knows the receiving end has. * nd/fetch-into-shallow: Add testcase for needless objects during a shallow fetch list-objects: mark more commits as edges in mark_edges_uninteresting list-objects: reduce one argument in mark_edges_uninteresting upload-pack: delegate rev walking in shallow fetch to pack-objects shallow: add setup_temporary_shallow() shallow: only add shallow graft points to new shallow file move setup_alternate_shallow and write_shallow_commits to shallow.c